Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 87 of 205
Found at i:25529104 original size:273 final size:273
Alignment explanation
Indices: 25528617--25529162 Score: 1056
Period size: 273 Copynumber: 2.0 Consensus size: 273
25528607 ACATTTAATT
*
25528617 TCTTCTATGTATCACTTCATCAGATGGGTGGGGTGACTTGTCTGTTTTTATTACATGTCAAAACT
1 TCTTCTATGTATCACTTCATCAGATGGGTGGGGTGACTTGTCTGTTTTTATTACATGTCAAAACC
*
25528682 GACATCTCATAGTGGACTTTTCTATTTGGCAGTCGGTGAAATGAAGATTGTTAATATTTGCTAAT
66 GACATCTCATAGTGGACTTTTCTATTTGGCAGTCGGTGAAATAAAGATTGTTAATATTTGCTAAT
25528747 CTTTCCCCTTTTAAAGTGGTTGAGAGAGGCTGAAGAAGAAGAGGAGGAGGATGAGTGAGACTACT
131 CTTTCCCCTTTTAAAGTGGTTGAGAGAGGCTGAAGAAGAAGAGGAGGAGGATGAGTGAGACTACT
25528812 GGTGTATTGGCAGGTATGAAAATATAGTCTGCCTTTGTTTGCAATTTTCGCTTTTCATGTGGCTA
196 GGTGTATTGGCAGGTATGAAAATATAGTCTGCCTTTGTTTGCAATTTTCGCTTTTCATGTGGCTA
25528877 ATAAAGTATTGAA
261 ATAAAGTATTGAA
25528890 TCTTCTATGTATCACTTCATCAGATGGGTGGGGTGACTTGTCTGTTTTTATTACATGTCAAAACC
1 TCTTCTATGTATCACTTCATCAGATGGGTGGGGTGACTTGTCTGTTTTTATTACATGTCAAAACC
*
25528955 GACATCTCATAGTGGACTTTTCTATTTGGCAGTCGGTGAAATAAAGATTGTTAATATTTGCTCAT
66 GACATCTCATAGTGGACTTTTCTATTTGGCAGTCGGTGAAATAAAGATTGTTAATATTTGCTAAT
25529020 CTTTCCCCTTTTAAAGTGGTTGAGAGAGGCTGAAGAAGAAGAGGAGGAGGATGAGTGAGACTACT
131 CTTTCCCCTTTTAAAGTGGTTGAGAGAGGCTGAAGAAGAAGAGGAGGAGGATGAGTGAGACTACT
*
25529085 GGTGTATTGGCAGGTATGAAAATATAGTCTGCCTTTGTTTGCAATTTTTGCTTTTCATGTGGCTA
196 GGTGTATTGGCAGGTATGAAAATATAGTCTGCCTTTGTTTGCAATTTTCGCTTTTCATGTGGCTA
25529150 ATAAAGTATTGAA
261 ATAAAGTATTGAA
25529163 ACATTTTGAT
Statistics
Matches: 269, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
273 269 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (273 bp):
TCTTCTATGTATCACTTCATCAGATGGGTGGGGTGACTTGTCTGTTTTTATTACATGTCAAAACC
GACATCTCATAGTGGACTTTTCTATTTGGCAGTCGGTGAAATAAAGATTGTTAATATTTGCTAAT
CTTTCCCCTTTTAAAGTGGTTGAGAGAGGCTGAAGAAGAAGAGGAGGAGGATGAGTGAGACTACT
GGTGTATTGGCAGGTATGAAAATATAGTCTGCCTTTGTTTGCAATTTTCGCTTTTCATGTGGCTA
ATAAAGTATTGAA
Found at i:25531938 original size:6 final size:7
Alignment explanation
Indices: 25531918--25531944 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25531908 TAACCAAACC
25531918 AACAAAA
1 AACAAAA
25531925 AACAAAA
1 AACAAAA
25531932 AACAAAA
1 AACAAAA
25531939 AACAAA
1 AACAAA
25531945 GAACCCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AACAAAA
Found at i:25539017 original size:627 final size:627
Alignment explanation
Indices: 25538061--25539316 Score: 2512
Period size: 627 Copynumber: 2.0 Consensus size: 627
25538051 TAATTTTGTC
25538061 TTTTCCCAATTATCCTCAGTTTGGTTCAATTCCAGATCTAAATGATAATTCAATTCAATTTATTA
1 TTTTCCCAATTATCCTCAGTTTGGTTCAATTCCAGATCTAAATGATAATTCAATTCAATTTATTA
25538126 ATTCCACACAATTTATAAAATCTTATTATAAGTCTAAATCAGTTCAATTTCCATTTTTTGAATGT
66 ATTCCACACAATTTATAAAATCTTATTATAAGTCTAAATCAGTTCAATTTCCATTTTTTGAATGT
25538191 CCCTAAAATTTTGCATCTTATTCAATTTAGTCTCTAAAATCGAAATTTTTATAGCTTTCAAATTT
131 CCCTAAAATTTTGCATCTTATTCAATTTAGTCTCTAAAATCGAAATTTTTATAGCTTTCAAATTT
25538256 GAGCTTCGATTTTGAAATCAATCTCAATTACATCCTTCTATAACCCTCTATTATCTATAATTATA
196 GAGCTTCGATTTTGAAATCAATCTCAATTACATCCTTCTATAACCCTCTATTATCTATAATTATA
25538321 GAAATTTATCATTAATTTCAAAATTTATACACTTTAGTCCTTATGTCTAAAAATTAGCAATTAAA
261 GAAATTTATCATTAATTTCAAAATTTATACACTTTAGTCCTTATGTCTAAAAATTAGCAATTAAA
25538386 CATTACAAACTAGTCTTTTCACTTCTAAACTTAAAATCTAACAATTTAGTACCAATTTCTTCAAG
326 CATTACAAACTAGTCTTTTCACTTCTAAACTTAAAATCTAACAATTTAGTACCAATTTCTTCAAG
25538451 CATTAATCAATGAAAACTTTTAGAAACTATAAAATTTTGGCAAATTGATACATCGGGTAGCTAAA
391 CATTAATCAATGAAAACTTTTAGAAACTATAAAATTTTGGCAAATTGATACATCGGGTAGCTAAA
25538516 TCAAGCTCCCTTCAACCTTAAAACATAAAAAATATAAGAAAATGACTTGTATACTTACCCATTTG
456 TCAAGCTCCCTTCAACCTTAAAACATAAAAAATATAAGAAAATGACTTGTATACTTACCCATTTG
25538581 AAGGACCAAAAGATGAAATTCTCAAAACTTATTCCTGTCCTTTTGTTTCAAGAAAGAAAAAATGG
521 AAGGACCAAAAGATGAAATTCTCAAAACTTATTCCTGTCCTTTTGTTTCAAGAAAGAAAAAATGG
25538646 ATCAGTTTCTTTTAATTTTTTCTTTTACAATTAGATTAACTA
586 ATCAGTTTCTTTTAATTTTTTCTTTTACAATTAGATTAACTA
25538688 TTTTCCCAATTATCCTCAGTTTGGTTCAATTCCAGATCTAAATGATAATTCAATTCAATTTATTA
1 TTTTCCCAATTATCCTCAGTTTGGTTCAATTCCAGATCTAAATGATAATTCAATTCAATTTATTA
25538753 ATTCCACACAATTTATAAAATCTTATTATAAGTCTAAATCAGTTCAATTTCCATTTTTTGAATGT
66 ATTCCACACAATTTATAAAATCTTATTATAAGTCTAAATCAGTTCAATTTCCATTTTTTGAATGT
25538818 CCCTAAAATTTTGCATCTTATTCAATTTAGTCTCTAAAATCGAAATTTTTATAGCTTTCAAATTT
131 CCCTAAAATTTTGCATCTTATTCAATTTAGTCTCTAAAATCGAAATTTTTATAGCTTTCAAATTT
25538883 GAGCTTCGATTTTGAAATCAATCTCAATTACATCCTTCTATAACCCTCTATTATCTATAATTATA
196 GAGCTTCGATTTTGAAATCAATCTCAATTACATCCTTCTATAACCCTCTATTATCTATAATTATA
25538948 GAAATTTATCATTAATTTCAAAATTTATACACTTTAGTCCTTATGTCTAAAAATTAGCAATTAAA
261 GAAATTTATCATTAATTTCAAAATTTATACACTTTAGTCCTTATGTCTAAAAATTAGCAATTAAA
25539013 CATTACAAACTAGTCTTTTCACTTCTAAACTTAAAATCTAACAATTTAGTACCAATTTCTTCAAG
326 CATTACAAACTAGTCTTTTCACTTCTAAACTTAAAATCTAACAATTTAGTACCAATTTCTTCAAG
25539078 CATTAATCAATGAAAACTTTTAGAAACTATAAAATTTTGGCAAATTGATACATCGGGTAGCTAAA
391 CATTAATCAATGAAAACTTTTAGAAACTATAAAATTTTGGCAAATTGATACATCGGGTAGCTAAA
25539143 TCAAGCTCCCTTCAACCTTAAAACATAAAAAATATAAGAAAATGACTTGTATACTTACCCATTTG
456 TCAAGCTCCCTTCAACCTTAAAACATAAAAAATATAAGAAAATGACTTGTATACTTACCCATTTG
25539208 AAGGACCAAAAGATGAAATTCTCAAAACTTATTCCTGTCCTTTTGTTTCAAGAAAGAAAAAATGG
521 AAGGACCAAAAGATGAAATTCTCAAAACTTATTCCTGTCCTTTTGTTTCAAGAAAGAAAAAATGG
25539273 ATCAGTTTCTTTTAATTTTTTCTTTTACAATTAGATTAACTA
586 ATCAGTTTCTTTTAATTTTTTCTTTTACAATTAGATTAACTA
25539315 TT
1 TT
25539317 AATTAATCAA
Statistics
Matches: 629, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
627 629 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.39
Consensus pattern (627 bp):
TTTTCCCAATTATCCTCAGTTTGGTTCAATTCCAGATCTAAATGATAATTCAATTCAATTTATTA
ATTCCACACAATTTATAAAATCTTATTATAAGTCTAAATCAGTTCAATTTCCATTTTTTGAATGT
CCCTAAAATTTTGCATCTTATTCAATTTAGTCTCTAAAATCGAAATTTTTATAGCTTTCAAATTT
GAGCTTCGATTTTGAAATCAATCTCAATTACATCCTTCTATAACCCTCTATTATCTATAATTATA
GAAATTTATCATTAATTTCAAAATTTATACACTTTAGTCCTTATGTCTAAAAATTAGCAATTAAA
CATTACAAACTAGTCTTTTCACTTCTAAACTTAAAATCTAACAATTTAGTACCAATTTCTTCAAG
CATTAATCAATGAAAACTTTTAGAAACTATAAAATTTTGGCAAATTGATACATCGGGTAGCTAAA
TCAAGCTCCCTTCAACCTTAAAACATAAAAAATATAAGAAAATGACTTGTATACTTACCCATTTG
AAGGACCAAAAGATGAAATTCTCAAAACTTATTCCTGTCCTTTTGTTTCAAGAAAGAAAAAATGG
ATCAGTTTCTTTTAATTTTTTCTTTTACAATTAGATTAACTA
Found at i:25539348 original size:10 final size:10
Alignment explanation
Indices: 25539335--25539375 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
25539325 AAAATTAGCC
25539335 TAATTAACTA
1 TAATTAACTA
25539345 TAATTAACTA
1 TAATTAACTA
*
25539355 -AACTTAATTA
1 TAA-TTAACTA
25539365 TAATTAA-TA
1 TAATTAACTA
25539374 TA
1 TA
25539376 GTTGGTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 6 0.21
10 20 0.71
11 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATTAACTA
Found at i:25541972 original size:22 final size:22
Alignment explanation
Indices: 25541947--25541998 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
25541937 TCAATGTCAC
* **
25541947 GACATCCAGAAGCCAATGTTGT
1 GACATCCAGAAGCAAACATTGT
**
25541969 GACATCCCTAAGCAAACATTGT
1 GACATCCAGAAGCAAACATTGT
25541991 GACATCCA
1 GACATCCA
25541999 ACTTTGAGTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (22 bp):
GACATCCAGAAGCAAACATTGT
Found at i:25545755 original size:14 final size:15
Alignment explanation
Indices: 25545736--25545764 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25545726 TCACCTGGGT
25545736 TTAGTTTTTT-TTAA
1 TTAGTTTTTTCTTAA
25545750 TTAGTTTTTTCTTAA
1 TTAGTTTTTTCTTAA
25545765 ATCAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (15 bp):
TTAGTTTTTTCTTAA
Found at i:25557754 original size:42 final size:42
Alignment explanation
Indices: 25557686--25557867 Score: 178
Period size: 42 Copynumber: 4.3 Consensus size: 42
25557676 CGGTGGATTT
25557686 AGCACTTAGCAACCACC-TTAAATTCAGTGATACGGTGAATC
1 AGCACTTAGCAACCACCTTTAAATTCAGTGATACGGTGAATC
** * *
25557727 AATACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATC
1 AGCACTTAGCAACCACCTTTAAATTCAGTGATACGGTGAATC
* * *
25557769 GGCACATAGCAACC-CCTTTCACAA-TCAAATG-TACGGTGGAATC
1 AGCACTTAGCAACCACCTTT-A-AATTC-AGTGATACGGT-GAATC
* * *
25557812 AGCACTTAGCAACCACCTTTAGAA-TCAATAATTCGAG-GAATC
1 AGCACTTAGCAACCACCTTTA-AATTCAGTGATACG-GTGAATC
25557854 AGCACTTAGCAACC
1 AGCACTTAGCAACC
25557868 CCTCGGGGAA
Statistics
Matches: 117, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
41 20 0.17
42 62 0.53
43 29 0.25
44 6 0.05
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
AGCACTTAGCAACCACCTTTAAATTCAGTGATACGGTGAATC
Found at i:25557819 original size:85 final size:84
Alignment explanation
Indices: 25557716--25557870 Score: 211
Period size: 85 Copynumber: 1.8 Consensus size: 84
25557706 AATTCAGTGA
* * * * * * *
25557716 TACGGTGAATCAATACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCGGCACATAGCAA
1 TACGGTGAATCAACACTTAGCAACCACCTTTAGAATCAATAATACGAGGAATCAGCACATAGCAA
25557781 CCCCTTTCACAATCAAATG
66 CCCCTTTCACAATCAAATG
* * *
25557800 TACGGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGAGGAATCAGCACTTAGCA
1 TACGGT-GAATCAACACTTAGCAACCACCTTTAGAATCAATAATACGAGGAATCAGCACATAGCA
25557865 ACCCCT
65 ACCCCT
25557871 CGGGGAATCT
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 6 0.10
85 54 0.90
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (84 bp):
TACGGTGAATCAACACTTAGCAACCACCTTTAGAATCAATAATACGAGGAATCAGCACATAGCAA
CCCCTTTCACAATCAAATG
Found at i:25576173 original size:40 final size:40
Alignment explanation
Indices: 25576091--25576173 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
25576081 TTCTTCCCAC
* *
25576091 ATGGCCAAAAGGTTATAAATATAGTTTAAGAAATAGGGCA
1 ATGGCCAAAAGGTTATAAATATAGTTTAAGAAACAAGGCA
* * * *
25576131 ATGGCCATAGGGTTATAAATATAGTTTAAGATACAAGTCA
1 ATGGCCAAAAGGTTATAAATATAGTTTAAGAAACAAGGCA
25576171 ATG
1 ATG
25576174 AGATGGAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (40 bp):
ATGGCCAAAAGGTTATAAATATAGTTTAAGAAACAAGGCA
Found at i:25578745 original size:14 final size:14
Alignment explanation
Indices: 25578722--25578756 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
25578712 TAAAACTTTT
25578722 CTTT-AAAACATAA
1 CTTTAAAAACATAA
25578735 CTTTAAAAACATAA
1 CTTTAAAAACATAA
*
25578749 CTTGAAAA
1 CTTTAAAA
25578757 CTTATCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (14 bp):
CTTTAAAAACATAA
Found at i:25590809 original size:82 final size:82
Alignment explanation
Indices: 25590672--25590830 Score: 273
Period size: 82 Copynumber: 1.9 Consensus size: 82
25590662 AACATATCGA
* * * * *
25590672 CTATCGGCTTAATCATCTTTAGAGCATAAGCCTCCACTTATATCAAAGCGCATAAGTTACGTACG
1 CTATCGCCTCAATCATCTTTAGAGAATAAGCCTCCACTTATATCAAAGCACATAAGTTACATACG
25590737 CATGGTCAGTGACTAAG
66 CATGGTCAGTGACTAAG
25590754 CTATCGCCTCAATCATCTTTAGAGAATAAGCCTCCACTTATATCAAAGCACATAAGTTACATACG
1 CTATCGCCTCAATCATCTTTAGAGAATAAGCCTCCACTTATATCAAAGCACATAAGTTACATACG
25590819 CATGGTCAGTGA
66 CATGGTCAGTGA
25590831 TTAACTCAAG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (82 bp):
CTATCGCCTCAATCATCTTTAGAGAATAAGCCTCCACTTATATCAAAGCACATAAGTTACATACG
CATGGTCAGTGACTAAG
Found at i:25592319 original size:17 final size:17
Alignment explanation
Indices: 25592297--25592334 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
25592287 TAGATTTGGG
25592297 TTAAGAAAATTA-TTTAA
1 TTAAG-AAATTAGTTTAA
*
25592314 TTAAGAAATTAGTTTAT
1 TTAAGAAATTAGTTTAA
25592331 TTAA
1 TTAA
25592335 ATTAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (17 bp):
TTAAGAAATTAGTTTAA
Found at i:25599607 original size:29 final size:29
Alignment explanation
Indices: 25599561--25599621 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
25599551 TACTGGTTGT
*
25599561 ACCTATTCATTACAACCAATTTCGATTGC
1 ACCTATTCATTACAACCAATTTCAATTGC
* * *
25599590 ACCTATTCATTGCGACCAATTTTAATTGC
1 ACCTATTCATTACAACCAATTTCAATTGC
25599619 ACC
1 ACC
25599622 AGTCGATGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (29 bp):
ACCTATTCATTACAACCAATTTCAATTGC
Found at i:25600129 original size:16 final size:17
Alignment explanation
Indices: 25600097--25600137 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
25600087 AATCTAATTC
*
25600097 ATTTGATATATTTAAAT
1 ATTTTATATATTTAAAT
25600114 ATTTTATATA-TTAAAT
1 ATTTTATATATTTAAAT
25600130 ATTTTATA
1 ATTTTATA
25600138 AAAACATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTTATATATTTAAAT
Found at i:25605447 original size:4 final size:4
Alignment explanation
Indices: 25605438--25605480 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
25605428 GAAAATAGAT
25605438 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
25605481 AATGAAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:25607475 original size:100 final size:100
Alignment explanation
Indices: 25607228--25607487 Score: 349
Period size: 100 Copynumber: 2.6 Consensus size: 100
25607218 GTCCAATTTA
* * ** * *
25607228 TTTAACTACAATGTCGGGGAAGAAAGATTTTCCGTTGTGGCTTCAATATGTTCCACTGCACCGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCATTGCACCGCC
* * *
25607293 TGAGAAGTAAGATTCGCTATTGTAGCTTCAATCTT
66 TGAAAAGTAAGATTCGCTACTCTAGCTTCAATCTT
* * * * *
25607328 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCATTGCATCGTC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCATTGCACCGCC
* *
25607393 TGAAAAGTAAGATTCGCTGCTCTAGCTTTAATCTT
66 TGAAAAGTAAGATTCGCTACTCTAGCTTCAATCTT
* * *
25607428 TTTAACTGTAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTCAATCTATTCCATTGCA
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCATTGCA
25607488 ATGTCAGGGA
Statistics
Matches: 139, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 139 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (100 bp):
TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCATTGCACCGCC
TGAAAAGTAAGATTCGCTACTCTAGCTTCAATCTT
Found at i:25607491 original size:50 final size:50
Alignment explanation
Indices: 25607236--25607534 Score: 201
Period size: 50 Copynumber: 6.0 Consensus size: 50
25607226 TATTTAACTA
* * ** * * *
25607236 CAATGTCGGGGAAGAAAGATTTTCCGTTGTGGCTTCAATATGTTCCACTG
1 CAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG
** * * * * **
25607286 CACCGCCTGA-GAAGTAAGATTCGCTATTGTAGCTTCAATCTTTTTAACTG
1 CAATGTC-GAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG
* *
25607336 CAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCATTG
1 CAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG
* * * * * * **
25607386 C-ATCGTCTGA-AAAGTAAGATTCGCTGCTCTAGCTTTAATCTTTTTAACTG
1 CAAT-GTC-GAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG
* * * * * *
25607436 TAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTCAATCTATTCCATTG
1 CAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG
** * * * *
25607486 CAATGTC-AGGGAAATAAGATTAGCCGTCGTAGCTTCACTCTGTTCCACT
1 CAATGTCGA-GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACT
25607535 ACTGCTTAGG
Statistics
Matches: 185, Mismatches: 57, Indels: 14
0.72 0.22 0.05
Matches are distributed among these distances:
49 6 0.03
50 175 0.95
51 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (50 bp):
CAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG
Found at i:25607519 original size:100 final size:99
Alignment explanation
Indices: 25607228--25607522 Score: 315
Period size: 100 Copynumber: 2.9 Consensus size: 99
25607218 GTCCAATTTA
* * ** * * ** *
25607228 TTTAACTACAATGTCGGGGAAGAAAGATTTTCCGTTGTGGCTTCAATATGTTCCACTGCACCGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCATTGCAATGTC
* * * *
25607293 TGAGAAGTAAGATTCGCTATTGTAGCTTCAATCTT
66 -GGGAAATAAGATTCGCTGTCGTAGCTTCAATCTT
* * *
25607328 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCATTGC-ATCGT
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCATTGCAAT-GT
* * *
25607392 CTGAAAAGTAAGATTCGCTGCTC-TAGCTTTAATCTT
65 CGGGAAA-TAAGATTCGCTG-TCGTAGCTTCAATCTT
* * *
25607428 TTTAACTGTAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTCAATCTATTCCATTGCAATGTC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCATTGCAATGTC
* *
25607493 AGGGAAATAAGATTAGCCGTCGTAGCTTCA
66 -GGGAAATAAGATTCGCTGTCGTAGCTTCA
25607523 CTCTGTTCCA
Statistics
Matches: 160, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
99 4 0.03
100 149 0.93
101 7 0.04
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (99 bp):
TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCATTGCAATGTC
GGGAAATAAGATTCGCTGTCGTAGCTTCAATCTT
Found at i:25607650 original size:45 final size:43
Alignment explanation
Indices: 25607528--25607687 Score: 162
Period size: 44 Copynumber: 3.6 Consensus size: 43
25607518 CTTCACTCTG
* * * * *
25607528 TTCCACTACTG-CTTAGGGAGATAAGATCTATAATTTTCAGCCTA
1 TTCCACTACTGAC-CAGGGAGATAGGAT-TACAATCTTCAACCTA
* * *
25607572 CTCCACTACTG-CTTAGGGAGATAAGGCTTACAATCTTCAACCTA
1 TTCCACTACTGAC-CAGGGAGAT-AGGATTACAATCTTCAACCTA
25607616 TTCCTACTACTGACCAGGGAGATAGGATTCACAATCTTCAACCTA
1 TTCC-ACTACTGACCAGGGAGATAGGATT-ACAATCTTCAACCTA
* *
25607661 TTCCACTGCTGACCAGAGAGATAGGAT
1 TTCCACTACTGACCAGGGAGATAGGAT
25607688 CAGTGGCTTA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
44 63 0.62
45 37 0.37
46 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
TTCCACTACTGACCAGGGAGATAGGATTACAATCTTCAACCTA
Found at i:25609840 original size:6 final size:6
Alignment explanation
Indices: 25609829--25609878 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
25609819 TGTCCTCTCC
*
25609829 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCC TTTTC- TTTT-T TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
25609875 TTTT
1 TTTT
25609879 TCTTCTTATC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:25609934 original size:23 final size:22
Alignment explanation
Indices: 25609901--25609949 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
25609891 TTTCATATTT
*
25609901 TTTTTTTATTTTGACTTTGATCA
1 TTTTTTAATTTTGACTTT-ATCA
* *
25609924 TTTTTTAATTTTTACTTTTTCA
1 TTTTTTAATTTTGACTTTATCA
25609946 TTTT
1 TTTT
25609950 GATTTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTTTAATTTTGACTTTATCA
Found at i:25611108 original size:24 final size:24
Alignment explanation
Indices: 25611050--25611110 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
25611040 GAAGAAAATC
* *
25611050 CAAAATAATGAAAGAATAATTATT
1 CAAAAAAATGAAAGAATAATTACT
* *
25611074 CGAAAAGAATGAAAGAAT-ATTGGCT
1 C-AAAAAAATGAAAGAATAATT-ACT
25611099 CAAAAAAATGAA
1 CAAAAAAATGAA
25611111 TGCAAAGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 14 0.45
25 17 0.55
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.21
Consensus pattern (24 bp):
CAAAAAAATGAAAGAATAATTACT
Found at i:25612913 original size:40 final size:41
Alignment explanation
Indices: 25612817--25612928 Score: 111
Period size: 40 Copynumber: 2.7 Consensus size: 41
25612807 AGGGTTTAGA
* *
25612817 TGTTACTTAATATTATTGTTAGTAAAAAACTAGTATTATTAT
1 TGTTAGTTAATATTATTTTTAGTAAAAAACTAG-ATTATTAT
* * * **
25612859 T-ATGGTTAGTTATTATTTTTAGTAAAACCCTA-ATTATTAT
1 TGTTAGTTA-ATATTATTTTTAGTAAAAAACTAGATTATTAT
*
25612899 TGTTAGTTAATATTATTTTGAGTATAAAAA
1 TGTTAGTTAATATTATTTTTAGTA-AAAAA
25612929 TATTATTATT
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
40 22 0.41
41 12 0.22
42 20 0.37
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (41 bp):
TGTTAGTTAATATTATTTTTAGTAAAAAACTAGATTATTAT
Found at i:25615679 original size:295 final size:295
Alignment explanation
Indices: 25615149--25615738 Score: 1029
Period size: 295 Copynumber: 2.0 Consensus size: 295
25615139 TTCTACAGGC
*
25615149 TGGCTACCTTGATGCCAAGAATGGGTCAGCAACAAGCCGAGCAGATGGAGGCGGGACACGTGTTT
1 TGGCTACCTTGATGCCAAGAATGGGTCAGCAACAAGCCGAGCAGACGGAGGCGGGACACGTGTTT
* * *
25615214 GTCGAACATGTCAAGGATGCAATGGTTGCAAACCGTTGGTTGGCGAGGTTAATAAATGTAGAAAT
66 GTCGAACATGTCAAGGATGCAATGGTTGCAAACCGTCGGTTGGCAAGGTCAATAAATGTAGAAAT
*
25615279 ATATTCACGACTACTAGAAACGTTTCGAATTACTGAGACGATCAGTCGTCGACCTAGTATACCAA
131 ATATTCACGACGACTAGAAACGTTTCGAATTACTGAGACGATCAGTCGTCGACCTAGTATACCAA
*
25615344 CTAGGTCCTATAGAGTTGATCTCCGGAACAGACGGTGCGAGTGCAGGAGGTTCGAAACGCTTCAT
196 CTAGGTCCTATAGAGTTGATCTCCGGAACAGACGGTGCGAGTGCAAGAGGTTCGAAACGCTTCAT
* *
25615409 TATCCATGTGTGCATGTCGTGGCAGCGTGTGCTAA
261 TATCCATGTGCGCATGTCGTGGCAGCGTGTACTAA
*
25615444 TGGCTACCTTGATGCCAAGAATGGGTCAGCAACAA-CTCGAGTAGACGGAGGCGGGACACGTGTT
1 TGGCTACCTTGATGCCAAGAATGGGTCAGCAACAAGC-CGAGCAGACGGAGGCGGGACACGTGTT
* *
25615508 TGTCGAACATGTCAGGGATGCCATGGTTGCAAACCGTCGGTTGGCAAGGTCAATAAATGTAGAAA
65 TGTCGAACATGTCAAGGATGCAATGGTTGCAAACCGTCGGTTGGCAAGGTCAATAAATGTAGAAA
* *
25615573 TATATTCATGACGACTAGAAACGTTTCGAGTTACTGAGACGATCAGTCGTCGACCTAGTATACCA
130 TATATTCACGACGACTAGAAACGTTTCGAATTACTGAGACGATCAGTCGTCGACCTAGTATACCA
* *
25615638 ACTAGGTTCTATGGAGTTGATCTCCGGAACAGACGGTGCGAGTGCAAGAGGTTCGAAACGCTTCA
195 ACTAGGTCCTATAGAGTTGATCTCCGGAACAGACGGTGCGAGTGCAAGAGGTTCGAAACGCTTCA
25615703 TTATCCATGTGCGCATGTCGTGGCAGCGTGTACTAA
260 TTATCCATGTGCGCATGTCGTGGCAGCGTGTACTAA
25615739 AGTGAAAGTT
Statistics
Matches: 279, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
294 1 0.00
295 278 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (295 bp):
TGGCTACCTTGATGCCAAGAATGGGTCAGCAACAAGCCGAGCAGACGGAGGCGGGACACGTGTTT
GTCGAACATGTCAAGGATGCAATGGTTGCAAACCGTCGGTTGGCAAGGTCAATAAATGTAGAAAT
ATATTCACGACGACTAGAAACGTTTCGAATTACTGAGACGATCAGTCGTCGACCTAGTATACCAA
CTAGGTCCTATAGAGTTGATCTCCGGAACAGACGGTGCGAGTGCAAGAGGTTCGAAACGCTTCAT
TATCCATGTGCGCATGTCGTGGCAGCGTGTACTAA
Found at i:25618775 original size:159 final size:155
Alignment explanation
Indices: 25618373--25618784 Score: 394
Period size: 159 Copynumber: 2.6 Consensus size: 155
25618363 GAAAAAAAGC
* * *
25618373 TAGTAAAACACTCTTACTTCGGCCATTTCTTCGTA-TTTTTCCTCAGCATTTTATTA-TTTTAAA
1 TAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAA
*
25618436 AAATATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTGCATTATATTTGAAATTTATTA
66 AAATATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTACATTATATTTGAAATTTATTA
* * *
25618501 ATTTAGTGTGTTTTTTAAATTAATT
131 ATTTAGTCTGATTTTTAAATAAATT
* * * * * *
25618526 TAGTGTCAAAAAAACCCTTA-TTCCTGCCCTTTGC-TCGTATTGTTTTCT-CGAATTTTATTACT
1 TA--GT--AAAACACTCTTACTT-CGGCCATTT-CTTCGTATTTTTTTCTCCGCATTTTATTACT
* * * * * * *
25618588 TTCAATAAAAA-AT-ATTATTTTTGTATTTTATTATTTT-CTATTATTTCAGTACATTTTGTTTG
60 TT-AA-AAAAATATCATAATTTCT-AATTTTATAATTTTAC-ATTATTTAAGTACATTATATTTG
*
25618650 AAATATTTGTATTAA-TTATTTCTGAATTTTTAAA-AAATT
121 -AA-A-TT-TATTAATTTA-GTCTG-ATTTTTAAATAAATT
* *
25618689 TAGTAAAACGCTCTTACTTCGGTCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAA
1 TAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAA
*
25618754 AAATATCATAATTTCTAATTTTATAAATTTA
66 AAATATCATAATTTCTAATTTTATAATTTTA
25618785 TTAATTTAGT
Statistics
Matches: 201, Mismatches: 34, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
153 2 0.01
155 2 0.01
156 2 0.01
157 32 0.16
158 24 0.12
159 77 0.38
160 31 0.15
161 3 0.01
162 5 0.02
163 15 0.07
164 8 0.04
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (155 bp):
TAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAA
AAATATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTACATTATATTTGAAATTTATTA
ATTTAGTCTGATTTTTAAATAAATT
Found at i:25618990 original size:264 final size:262
Alignment explanation
Indices: 25618519--25619045 Score: 932
Period size: 264 Copynumber: 2.0 Consensus size: 262
25618509 TGTTTTTTAA
*
25618519 ATTAATTTAGTGTCAAAAAAACCCTTATTCCTGCCCTTTGCTCGTATTGTTTTCTCGAATTTTAT
1 ATTAATTTAGTGTCAAAAAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTTCTCGAATTTTAT
* *
25618584 TACTTTCAATAAAAAATATTATTTTTGTATTTTATTATTTTCTATTATTTCAGTACATTTTGTTT
66 TACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTT
*
25618649 GAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTAGTAAAACGCTCTTACTTCGGTCA
131 GAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCGGTCA
25618714 TTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAAATATCATAATTTCTAATTTTATA
196 TTTCTTCGTA-TTTTTT-TCCGCATTTTATTACTTT-AAAAAATATCATAATTTCTAATTTTATA
25618779 AATTT
258 AATTT
* *
25618784 ATTAATTTAGTGTCAAAAAAACCCTTATTCTTGCCCTTTGCTCGTATTATTTTC-CTGAATTTTG
1 ATTAATTTAGTGTCAAAAAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTTCTC-GAATTTTA
*
25618848 TTACTTTCAA-AAAAAATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTATATTTTGTT
65 TTACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTT
25618912 TGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCGGTC
130 TGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCGGTC
*
25618977 ATTTCTTCGTATTTTTTTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAT
195 ATTTCTTCGTATTTTTTTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAA
25619042 TTT
260 TTT
25619045 A
1 A
25619046 CTTTATTTCA
Statistics
Matches: 253, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
261 33 0.13
262 18 0.07
263 6 0.02
264 127 0.50
265 69 0.27
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (262 bp):
ATTAATTTAGTGTCAAAAAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTTCTCGAATTTTAT
TACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTT
GAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCGGTCA
TTTCTTCGTATTTTTTTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAAT
TT
Found at i:25619486 original size:10 final size:10
Alignment explanation
Indices: 25619471--25619596 Score: 81
Period size: 10 Copynumber: 12.6 Consensus size: 10
25619461 TTCTCTTCTC
25619471 CTTTCCTTTT
1 CTTTCCTTTT
25619481 CTTTCCTTCTT
1 CTTTCCTT-TT
25619492 -TTT-CTTTCT
1 CTTTCCTTT-T
*
25619501 TTTTGCTTCTTCTT
1 CTTT-C--CTT-TT
25619515 CTTTCCTTTT
1 CTTTCCTTTT
25619525 CTTTCCTTCTT
1 CTTTCCTT-TT
25619536 -TTT-C-TTT
1 CTTTCCTTTT
*
25619543 CTTTCC-TCT
1 CTTTCCTTTT
25619552 CATTTCCTTTT
1 C-TTTCCTTTT
*
25619563 CTTTCTTTTT
1 CTTTCCTTTT
25619573 CTTT-C-TTT
1 CTTTCCTTTT
25619581 CTTT-CTTCTT
1 CTTTCCTT-TT
25619591 CTTTCC
1 CTTTCC
25619597 CTCTCCTTCT
Statistics
Matches: 95, Mismatches: 5, Indels: 31
0.73 0.04 0.24
Matches are distributed among these distances:
7 2 0.02
8 13 0.14
9 10 0.11
10 50 0.53
11 11 0.12
13 1 0.01
14 7 0.07
15 1 0.01
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:25619490 original size:38 final size:39
Alignment explanation
Indices: 25619448--25619596 Score: 164
Period size: 38 Copynumber: 3.8 Consensus size: 39
25619438 CCTTCTTCTT
25619448 CTTCTTCTTT-TTT-TTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTCTTTCTTTCTT-TCTTCTCCTTTCCTTTTCTTTC
25619486 CTTCTT-TTTCTTTCTTTTTGCTTCTTCTTCTTTCCTTTTCTTTC
1 CTTCTTCTTTCTTTC--TTT-CTTC-TC--CTTTCCTTTTCTTTC
* *
25619530 CTTCTT-TTTCTTTCTTTCCTCTCATTTCCTTTTCTTT-
1 CTTCTTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTC
* *
25619567 CTTTTTCTTTCTTTCTTTCTTCTTCTTTCC
1 CTTCTTCTTTCTTTCTTTCTTCTCCTTTCC
25619597 CTCTCCTTCT
Statistics
Matches: 96, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
37 8 0.08
38 42 0.44
40 3 0.03
41 9 0.09
42 5 0.05
44 29 0.30
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.69
Consensus pattern (39 bp):
CTTCTTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTC
Found at i:25619497 original size:44 final size:44
Alignment explanation
Indices: 25619442--25619594 Score: 159
Period size: 44 Copynumber: 3.4 Consensus size: 44
25619432 CTCCCCCCTT
* *
25619442 CTTCTTCTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTCTTTTTTTTCTCTTCTTCTTTCCTTTTCTTTC
* *
25619486 CTTCTTTTTCTT-TCTTTTTGCTTCTTCTTCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTCTTTTTTTTC-TCTTCTTCTTTCCTTTTCTTTC
*
25619530 CTTCTTTTTCTTTCTTTCCTCTCATTTC-CTT-TTCTTTCTTTTTCTTTC
1 CTTCTTTTTC-TTCTTT--T-T--TTTCTCTTCTTCTTTCCTTTTCTTTC
*
25619578 TTTCTTTCTTCTTCTTT
1 CTTCTTT-TTCTTCTTT
25619595 CCCTCTCCTT
Statistics
Matches: 92, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
43 7 0.08
44 42 0.46
45 2 0.02
46 2 0.02
48 29 0.32
49 7 0.08
51 3 0.03
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.70
Consensus pattern (44 bp):
CTTCTTTTTCTTCTTTTTTTTCTCTTCTTCTTTCCTTTTCTTTC
Found at i:25619557 original size:28 final size:28
Alignment explanation
Indices: 25619460--25619595 Score: 85
Period size: 28 Copynumber: 4.9 Consensus size: 28
25619450 TCTTCTTTTT
*
25619460 TTTCTCTTCTCCTTTCCTTTTCTTTCCTTC
1 TTTC-CTTCT-CTTTCCTTTTCTTTCTTTC
*
25619490 -TT--TT-TCTTTCTTTTTGC-TTCTTCTTC
1 TTTCCTTCTCTTTCCTTTT-CTTTC-T-TTC
*
25619516 TTTCCTTTTCTTTCCTTCTT-TTTCTTTC
1 TTTCCTTCTCTTTCCTT-TTCTTTCTTTC
25619544 TTTCC-TCTCATTTCCTTTTCTTTCTTTTTC
1 TTTCCTTCTC-TTTCCTTTTCTTTC--TTTC
25619574 TTT-CTT-TCTTT-CTTCTTCTTTC
1 TTTCCTTCTCTTTCCTT-TTCTTTC
25619596 CCTCTCCTTC
Statistics
Matches: 87, Mismatches: 4, Indels: 32
0.71 0.03 0.26
Matches are distributed among these distances:
24 12 0.14
25 2 0.02
26 5 0.06
27 10 0.11
28 29 0.33
29 8 0.09
30 19 0.22
31 2 0.02
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (28 bp):
TTTCCTTCTCTTTCCTTTTCTTTCTTTC
Found at i:25619604 original size:82 final size:80
Alignment explanation
Indices: 25619409--25619610 Score: 220
Period size: 82 Copynumber: 2.5 Consensus size: 80
25619399 AAAAATTACC
* *
25619409 TTTTCTTTCTTTCTTTTTCCTTCCTCCC-C-CCTTCTTCTTCTTCTTCTTTTTTTTCTCTTCTCC
1 TTTTCTTTCTTTCTTTTTCCTTCTTCCCTCTCCTT-TTCTTCTCCTTCTTTTTTTTCTCTTCTCC
25619472 TTTCCTTTTCTTTCCT
65 TTTCCTTTTCTTTCCT
* * * *
25619488 TCTT-TTTCTTTCTTTTTGCTTCTTCTTCTTTCCTTTTCTT-TCCTTCTTTTTCTTTCT-TTCCT
1 TTTTCTTTCTTTCTTTTTCCTTCTTC-CCTCTCCTTTTCTTCTCCTTCTTTTT-TTTCTCTT-CT
25619550 CTCATTTCCTTTTCTTT-CT
63 C-C-TTTCCTTTTCTTTCCT
*
25619569 TTTTCTTTCTTTCTTTCTT-CTTCTTTCCCTCTCCTTCTCTTC
1 TTTTCTTTCTTTCTTT-TTCCTTC-TTCCCTCTCCTTTTCTTC
25619611 CCCCCACCCA
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
78 19 0.19
79 16 0.16
80 13 0.13
81 10 0.10
82 39 0.38
83 5 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.66
Consensus pattern (80 bp):
TTTTCTTTCTTTCTTTTTCCTTCTTCCCTCTCCTTTTCTTCTCCTTCTTTTTTTTCTCTTCTCCT
TTCCTTTTCTTTCCT
Found at i:25626650 original size:171 final size:173
Alignment explanation
Indices: 25626365--25626708 Score: 541
Period size: 171 Copynumber: 2.0 Consensus size: 173
25626355 GCTAGGAAGG
* ** *
25626365 TATTTGCGTGAGGAATATCATCGTTTACACAAACAGCAGAACAGTTTTGGGACATCACGTCTATT
1 TATTTGCGTGAGGAATATCATCGTTTACACAAACAGCAAAACAGTTTAAGGACATCACGTCTACT
* *
25626430 GGTCAGCTAGTAAAATAAATATACTTTCACAATGGAAGGTTCAAGGGTTGATG-CCTA-CCTATG
66 GGTCAGCTAGTAAAATAAATATACTTTCACAAAGGAAAGTTCAAGGGTTGATGTCCTATCCTATG
25626493 CAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTTAAC
131 CAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTTAAC
* * *
25626536 TATTTGCGTGAGGAATATTATCGTTTACATAAAC-GACAAAACAGTTTAAGGACATCGCGTCTAC
1 TATTTGCGTGAGGAATATCATCGTTTACACAAACAG-CAAAACAGTTTAAGGACATCACGTCTAC
*
25626600 TGGTCAGCTAGTAAAGTAAATATACTTTCACAAAGGAAAGTTCAAGGGTTGATGTCTACCTATCC
65 TGGTCAGCTAGTAAAATAAATATACTTTCACAAAGGAAAGTTCAAGGGTTGATG--T-CCTATCC
25626665 TATGCAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTT
127 TATGCAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTT
25626709 TAAGTCTCAT
Statistics
Matches: 157, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
170 1 0.01
171 106 0.68
175 4 0.03
176 46 0.29
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (173 bp):
TATTTGCGTGAGGAATATCATCGTTTACACAAACAGCAAAACAGTTTAAGGACATCACGTCTACT
GGTCAGCTAGTAAAATAAATATACTTTCACAAAGGAAAGTTCAAGGGTTGATGTCCTATCCTATG
CAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTTAAC
Found at i:25626898 original size:20 final size:20
Alignment explanation
Indices: 25626853--25626891 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
25626843 TCTCTTGGTT
25626853 TAATA-TTGAATTTTTTTTC
1 TAATATTTGAATTTTTTTTC
25626872 TAATATTTGAATTTTTTTTC
1 TAATATTTGAATTTTTTTTC
25626892 ATTTATTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TAATATTTGAATTTTTTTTC
Found at i:25635408 original size:23 final size:24
Alignment explanation
Indices: 25635356--25635402 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
25635346 TTAGCTCTCA
*
25635356 TGAGCTTCCCGTTATATGGTTCTTG
1 TGAGCTTCCCGTTATA-GGCTCTTG
25635381 TGAGCTTCCCGTTATA-GCTCTT
1 TGAGCTTCCCGTTATAGGCTCTT
25635403 CGGAGCATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
25 16 0.76
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (24 bp):
TGAGCTTCCCGTTATAGGCTCTTG
Found at i:25646607 original size:16 final size:17
Alignment explanation
Indices: 25646581--25646616 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
25646571 ATTTAACTAT
*
25646581 TATCTTATAATAGTTTA
1 TATCTTATAATAGTATA
25646598 TATC-TATAATAGTATA
1 TATCTTATAATAGTATA
25646614 TAT
1 TAT
25646617 ACATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
TATCTTATAATAGTATA
Found at i:25649025 original size:17 final size:18
Alignment explanation
Indices: 25649003--25649044 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
25648993 ATAAATAAGA
*
25649003 ATTTAATTTATTAAA-AT
1 ATTTAATTAATTAAATAT
*
25649020 ATTTAATTAATTAAATTT
1 ATTTAATTAATTAAATAT
25649038 ATTTAAT
1 ATTTAAT
25649045 AAAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTAATTAATTAAATAT
Found at i:25651484 original size:21 final size:21
Alignment explanation
Indices: 25651458--25651498 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
25651448 GTGCACTTGC
25651458 TTTAGTCAAATTTTTAATTAG
1 TTTAGTCAAATTTTTAATTAG
25651479 TTTAGTCAAATTTTTAATTA
1 TTTAGTCAAATTTTTAATTA
25651499 ATTTTGCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTAGTCAAATTTTTAATTAG
Found at i:25657132 original size:21 final size:21
Alignment explanation
Indices: 25657103--25657149 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
25657093 ATGCTAGCAA
*
25657103 ATAAAAACATCCAAAATACAT
1 ATAACAACATCCAAAATACAT
25657124 ATAACAACATCCAAAATACAT
1 ATAACAACATCCAAAATACAT
25657145 ATAAC
1 ATAAC
25657150 CACAAGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAACAACATCCAAAATACAT
Found at i:25658089 original size:21 final size:20
Alignment explanation
Indices: 25658043--25658091 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
25658033 TTTAAAAAAA
25658043 AAATAATTTTAACACTTTTT
1 AAATAATTTTAACACTTTTT
25658063 --ATAATTCTTAATCA-TTTTT
1 AAATAATT-TTAA-CACTTTTT
25658082 AAATAATTTT
1 AAATAATTTT
25658092 TTTATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 4 0.16
21 6 0.24
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATAATTTTAACACTTTTT
Found at i:25659648 original size:20 final size:19
Alignment explanation
Indices: 25659625--25659665 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
25659615 ATTTAATTTA
25659625 ATAATAAATAAAATATTTTT
1 ATAATAAAT-AAATATTTTT
* *
25659645 ATAATTAATTAATATTTTT
1 ATAATAAATAAATATTTTT
25659664 AT
1 AT
25659666 TTTTAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATAAATAAATATTTTT
Found at i:25659658 original size:19 final size:19
Alignment explanation
Indices: 25659636--25659675 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25659626 TAATAAATAA
25659636 AATATTTTTATAATTAATT
1 AATATTTTTATAATTAATT
**
25659655 AATATTTTTATTTTTAATT
1 AATATTTTTATAATTAATT
25659674 AA
1 AA
25659676 AAATTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATATTTTTATAATTAATT
Found at i:25661188 original size:31 final size:31
Alignment explanation
Indices: 25661153--25661226 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
25661143 AGGGAATATG
* *
25661153 GTGGGTGGTTAATTGTGGGATTTAGTGGGGT
1 GTGGGTGGTTAATTATGGGATTTAGTGGGAT
*
25661184 GTGGGTGATTAATTATGGGATTTAGTGGGAT
1 GTGGGTGGTTAATTATGGGATTTAGTGGGAT
* *
25661215 ATGGGTCGTTAA
1 GTGGGTGGTTAA
25661227 GAAATTATCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.19, C:0.01, G:0.42, T:0.38
Consensus pattern (31 bp):
GTGGGTGGTTAATTATGGGATTTAGTGGGAT
Found at i:25662092 original size:85 final size:85
Alignment explanation
Indices: 25661977--25662149 Score: 256
Period size: 85 Copynumber: 2.0 Consensus size: 85
25661967 GGGTAGACTG
* * * * * * * *
25661977 TGTATGGCATACGACCGTGTGAAACTATGCAGGCTGTGTGGGGCACATGGCTGCGTGAAATCGTG
1 TGTAGGGCAAACGACCATGTGAAACCATGCAGGCCGTGTGGGGCAAATGGCCGCGTGAAATCATG
*
25662042 CAGCCCGTGAGGTTTGACCA
66 CAGCCCGTGAGGCTTGACCA
25662062 TGTAGGGCAAACGACCATGTGAAACCATGCAGGCCGTGTGGGGCAAATGGCCGCGTGAAATCATG
1 TGTAGGGCAAACGACCATGTGAAACCATGCAGGCCGTGTGGGGCAAATGGCCGCGTGAAATCATG
*
25662127 CAGCCCGTGTGGCTTGACCA
66 CAGCCCGTGAGGCTTGACCA
25662147 TGT
1 TGT
25662150 GAGATTTTGT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.21
Consensus pattern (85 bp):
TGTAGGGCAAACGACCATGTGAAACCATGCAGGCCGTGTGGGGCAAATGGCCGCGTGAAATCATG
CAGCCCGTGAGGCTTGACCA
Found at i:25662800 original size:5 final size:5
Alignment explanation
Indices: 25662790--25662840 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
25662780 TAGGACTTTG
*** *
25662790 TATGA TATGA TCCAA TATGA TATGA TATGA TATGA -ATCGA TATGT TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TAT-GA TATGA TATGA
25662840 T
1 T
25662841 TTATGATTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
4 2 0.06
5 32 0.89
6 2 0.06
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (5 bp):
TATGA
Found at i:25688171 original size:22 final size:22
Alignment explanation
Indices: 25688125--25688166 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
25688115 AACATAAACC
*
25688125 AATAGAATTGTTATTTTTAGAA
1 AATAGAATTGTTATTTTTAAAA
25688147 AATAGAA-T-TTATTTTTAAAA
1 AATAGAATTGTTATTTTTAAAA
25688167 TAAATTTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 1 0.05
22 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (22 bp):
AATAGAATTGTTATTTTTAAAA
Found at i:25688753 original size:4 final size:4
Alignment explanation
Indices: 25688736--25688770 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
25688726 TTTGAATTTG
*
25688736 AATT AATC AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
25688771 TGAAAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:25701605 original size:11 final size:11
Alignment explanation
Indices: 25701589--25701614 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25701579 ACTCAGCTAT
25701589 TACTTAATACA
1 TACTTAATACA
25701600 TACTTAATACA
1 TACTTAATACA
25701611 TACT
1 TACT
25701615 AAAATAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
TACTTAATACA
Found at i:25702881 original size:13 final size:13
Alignment explanation
Indices: 25702863--25702887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25702853 TACTAATGTA
25702863 ATTAATGAAAGTG
1 ATTAATGAAAGTG
25702876 ATTAATGAAAGT
1 ATTAATGAAAGT
25702888 AATGAGAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
ATTAATGAAAGTG
Found at i:25703185 original size:27 final size:27
Alignment explanation
Indices: 25703133--25703185 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
25703123 TTCAATAATT
* * *
25703133 ATATAAGTTATTAAAAAATTTCAAAAA
1 ATATAAATTATTAAAAAATATAAAAAA
25703160 ATATAAATTATT-AAAAATAATAAAAA
1 ATATAAATTATTAAAAAAT-ATAAAAA
25703186 TGAAATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
ATATAAATTATTAAAAAATATAAAAAA
Found at i:25709762 original size:21 final size:21
Alignment explanation
Indices: 25709711--25709763 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
25709701 TTTTTTAAAA
25709711 ATTTT-AAAT-ATATTTTATG
1 ATTTTCAAATAATATTTTATG
*
25709730 A-TTTCTAGATAATATTTTATG
1 ATTTTC-AAATAATATTTTATG
25709751 ATTTTCAAATAAT
1 ATTTTCAAATAAT
25709764 CATATTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 3 0.11
19 1 0.04
20 3 0.11
21 17 0.61
22 4 0.14
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (21 bp):
ATTTTCAAATAATATTTTATG
Found at i:25711292 original size:12 final size:12
Alignment explanation
Indices: 25711269--25711306 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
25711259 ACATGCACAG
*
25711269 TCAGATTCAGAT
1 TCAGATTTAGAT
*
25711281 TTAGATTTAGAT
1 TCAGATTTAGAT
25711293 TCAGATTTAGAT
1 TCAGATTTAGAT
25711305 TC
1 TC
25711307 GGACTCATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (12 bp):
TCAGATTTAGAT
Found at i:25711294 original size:18 final size:18
Alignment explanation
Indices: 25711271--25711305 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
25711261 ATGCACAGTC
25711271 AGATTCAGATTTAGATTT
1 AGATTCAGATTTAGATTT
25711289 AGATTCAGATTTAGATT
1 AGATTCAGATTTAGATT
25711306 CGGACTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (18 bp):
AGATTCAGATTTAGATTT
Found at i:25714373 original size:17 final size:18
Alignment explanation
Indices: 25714351--25714389 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25714341 TGGTGAGCTT
*
25714351 TGGAAA-ACAAGACATTG
1 TGGAAATACAAGACAATG
*
25714368 TGGAAATACAAGTCAATG
1 TGGAAATACAAGACAATG
25714386 TGGA
1 TGGA
25714390 GATTCGTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (18 bp):
TGGAAATACAAGACAATG
Found at i:25715065 original size:29 final size:29
Alignment explanation
Indices: 25715021--25715093 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
25715011 GCCTTAATTA
* * * *
25715021 AATTTAAATAATAAAATTATTTGTAATTTT
1 AATTTAAATAA-AAAAGTATATATAATATT
*
25715051 AATTTAAATGAAAAAGTATATATAATATT
1 AATTTAAATAAAAAAGTATATATAATATT
* *
25715080 AATTAAAATTAAAA
1 AATTTAAATAAAAA
25715094 TTTTTAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 26 0.72
30 10 0.28
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (29 bp):
AATTTAAATAAAAAAGTATATATAATATT
Found at i:25719453 original size:17 final size:17
Alignment explanation
Indices: 25719431--25719504 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 17
25719421 TTATGATGGA
*
25719431 GCATGAACTGTTATTTT
1 GCATGAACTATTATTTT
* * **
25719448 GCATGAATTGTTATTCA
1 GCATGAACTATTATTTT
* * *
25719465 GTATGAACTAATATTTC
1 GCATGAACTATTATTTT
**
25719482 AAATGAACTATTATTTT
1 GCATGAACTATTATTTT
25719499 GCATGA
1 GCATGA
25719505 GCTTTCATTT
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (17 bp):
GCATGAACTATTATTTT
Found at i:25720339 original size:2 final size:2
Alignment explanation
Indices: 25720332--25720360 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25720322 GAATTTACAA
25720332 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25720361 CATATATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25726708 original size:49 final size:50
Alignment explanation
Indices: 25726610--25726706 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 50
25726600 CATTTTATCT
* * *
25726610 TTCTATTAACATTCTTCAATTTTTTTATCTAAATTTTTTTGTCCAAAAGA
1 TTCTACTAACATTCTTAAATTTTTTTATCAAAATTTTTTTGTCCAAAAGA
*
25726660 TTCTACTAACGTTCTTAAATTTTTTATAT-AAATATTTTTTTG-CCAAA
1 TTCTACTAACATTCTTAAATTTTTT-TATCAAA-ATTTTTTTGTCCAAA
25726707 GAATTATACC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 29 0.71
51 12 0.29
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (50 bp):
TTCTACTAACATTCTTAAATTTTTTTATCAAAATTTTTTTGTCCAAAAGA
Found at i:25727460 original size:47 final size:47
Alignment explanation
Indices: 25727388--25727478 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
25727378 ATACATTGAG
*
25727388 TTTCATTTAGGCTTCCTTTGAATGCAATTGGACTTCAATAAGTTAGT
1 TTTCATTTAGGCTTCCCTTGAATGCAATTGGACTTCAATAAGTTAGT
* * *
25727435 TTTCATTTAGGCTTCCCTTGGATGCAATTGGACTTTAGTAAGTT
1 TTTCATTTAGGCTTCCCTTGAATGCAATTGGACTTCAATAAGTT
25727479 GGCTCTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (47 bp):
TTTCATTTAGGCTTCCCTTGAATGCAATTGGACTTCAATAAGTTAGT
Found at i:25737441 original size:15 final size:15
Alignment explanation
Indices: 25737417--25737454 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25737407 TTATAAGTAT
25737417 GTAAAAAAAATAAAA
1 GTAAAAAAAATAAAA
*
25737432 GTAAATAAAATAAAA
1 GTAAAAAAAATAAAA
*
25737447 TTAAAAAA
1 GTAAAAAA
25737455 CTGTAAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
GTAAAAAAAATAAAA
Found at i:25738123 original size:45 final size:44
Alignment explanation
Indices: 25738074--25738196 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 44
25738064 AGTGCTTCAA
* *
25738074 TCTACTCCACTGTAATGTCAGGGAGGTAGGATTTGATTTCTTGGG
1 TCTACTCCACTGCAAT-TCAGGGAGGTAGGATTTGATTTCTTGAG
* * * *
25738119 TCTACCCCACTGCAATTTCAGGG-GGATAAGACTTGCTTTCTTGAG
1 TCTACTCCACTGCAA-TTCAGGGAGG-TAGGATTTGATTTCTTGAG
* *
25738164 TCTGCTCCACTGCAACTTCAGGGAGATAGGATT
1 TCTACTCCACTGCAA-TTCAGGGAGGTAGGATT
25738197 ATTGGCTTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
44 2 0.03
45 59 0.94
46 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (44 bp):
TCTACTCCACTGCAATTCAGGGAGGTAGGATTTGATTTCTTGAG
Found at i:25738598 original size:44 final size:45
Alignment explanation
Indices: 25738550--25738945 Score: 400
Period size: 44 Copynumber: 9.0 Consensus size: 45
25738540 AAGGCTGGTG
* * * *
25738550 TCTTCGATCTGCTTCGCTATCAATGCAGGAAGGCAAGATCTGCT-
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* *
25738594 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * *
25738638 TCTTCGATCTACTTCAC-ACCAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * **
25738682 TCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * *
25738726 TCTTCGATCCATTTC-CTACCAATATAGGAAGACAGGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * * *
25738770 TCTTCGATCTACTTCAC-GCCAATACATGAAGAAAAGATCTGCTT
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * **
25738814 TCTTTGATCTACTTCGCCACCAATATGGGAAGACAAGA--T-CTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * *
25738856 GTCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTA
1 -TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * *
25738901 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
25738945 T
1 T
25738946 TTTTTAGCCT
Statistics
Matches: 289, Mismatches: 52, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
42 21 0.07
43 61 0.21
44 166 0.57
45 41 0.14
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
Found at i:25738736 original size:132 final size:132
Alignment explanation
Indices: 25738550--25738940 Score: 615
Period size: 132 Copynumber: 3.0 Consensus size: 132
25738540 AAGGCTGGTG
* * * *** * *
25738550 TCTTCGATCTGCTTCGCTATCAATGCAGGAAGGCAAGATCTGCTTCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* *
25738615 ATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTAC
66 ATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
25738680 TT
131 TT
* * *
25738682 TCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* *
25738747 ATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAAAAGATCTGC
66 ATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
25738812 TT
131 TT
*
25738814 TCTTTGATCTACTTCGCCACCAATATGGGAAGACAAGATCT--AGTCTTCGATCCACTTCCTACC
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCA-TCTTCGATCCACTTCCTACC
25738877 AATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
65 AATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
25738941 GCTATTTTTT
Statistics
Matches: 238, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
130 1 0.00
131 82 0.34
132 155 0.65
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
ATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
TT
Found at i:25738863 original size:87 final size:86
Alignment explanation
Indices: 25738576--25738943 Score: 393
Period size: 87 Copynumber: 4.2 Consensus size: 86
25738566 CTATCAATGC
*
25738576 AGGAAGGCAAGATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCTATCT
1 AGGAAGACAAGATCTGC-TCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCTATCT
* *
25738641 TCGATCTACTTCACACCAATAC
65 TCGATCTACTTCCCACCAATAT
* * * * *
25738663 ATGAAGACAAGATCTACTTTCTTCGATCTACTTTGCC-ACCAGTATGGGAAGACAAGATCTGC-A
1 AGGAAGACAAGATCTGC--TCTTCGATCCAC-TT-CCTACCAATATAGGAAGACAAGATCTGCTA
* * *
25738726 TCTTCGATCCATTTCCTACCAATAT
62 TCTTCGATCTACTTCCCACCAATAT
* * * * * * *
25738751 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGAAAAGATCTGCTTT
1 AGGAAGACAAGATCTGC--TCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTAT
*
25738815 CTTTGATCTACTTCGCCACCAATAT
63 CTTCGATCTACTTC-CCACCAATAT
* *
25738840 GGGAAGACAAGATCTAG-TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCT
1 AGGAAGACAAGATCT-GCTCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCTATCT
* * *
25738904 TCGATCTACTTCACGCCAATAC
65 TCGATCTACTTCCCACCAATAT
*
25738926 ATGAAGACAAGATCTGCT
1 AGGAAGACAAGATCTGCT
25738944 ATTTTTTAGC
Statistics
Matches: 231, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
85 1 0.00
86 23 0.10
87 85 0.37
88 72 0.31
89 47 0.20
90 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (86 bp):
AGGAAGACAAGATCTGCTCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTT
CGATCTACTTCCCACCAATAT
Found at i:25741744 original size:40 final size:40
Alignment explanation
Indices: 25741562--25741784 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
25741552 TCCTCGTTCA
* * * * *
25741562 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25741601 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25741641 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25741681 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
25741721 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25741761 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25741785 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25741793 original size:41 final size:41
Alignment explanation
Indices: 25741716--25741793 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
25741706 TTAGTATCTC
* * *
25741716 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
25741757 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
25741794 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:25744093 original size:42 final size:42
Alignment explanation
Indices: 25744043--25744125 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
25744033 ATTCACGATT
**
25744043 CTTCGCATATAGTAATATATATTGGTACCAGGGACGATTATG
1 CTTCGCATATAACAATATATATTGGTACCAGGGACGATTATG
* *
25744085 CTTCGCATATAACAATATATCTTGGTACTAGGGACGATTAT
1 CTTCGCATATAACAATATATATTGGTACCAGGGACGATTAT
25744126 TATTCTCCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (42 bp):
CTTCGCATATAACAATATATATTGGTACCAGGGACGATTATG
Found at i:25756301 original size:18 final size:18
Alignment explanation
Indices: 25756249--25756302 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
25756239 TGTATTATAA
* *
25756249 TATTAATTAATAAAACAT
1 TATTACTTAATAAAATAT
*
25756267 TATTACTTATTAAAATAT
1 TATTACTTAATAAAATAT
*
25756285 TATTACTTAATATAATAT
1 TATTACTTAATAAAATAT
25756303 AATTTAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTACTTAATAAAATAT
Found at i:25761641 original size:16 final size:16
Alignment explanation
Indices: 25761620--25761652 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25761610 ACACTTACGC
25761620 TTCCCAAATTGTCAGA
1 TTCCCAAATTGTCAGA
25761636 TTCCCAAATTGTCAGA
1 TTCCCAAATTGTCAGA
25761652 T
1 T
25761653 CTGAGTCGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (16 bp):
TTCCCAAATTGTCAGA
Found at i:25767594 original size:14 final size:14
Alignment explanation
Indices: 25767571--25767601 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25767561 AATAATTACT
*
25767571 AAATATAATAAATA
1 AAATAAAATAAATA
25767585 AAATAAAATAAATA
1 AAATAAAATAAATA
25767599 AAA
1 AAA
25767602 AGAAAAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:25773023 original size:17 final size:17
Alignment explanation
Indices: 25772985--25773023 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25772975 ATTAAAATCT
*
25772985 AAAAATTAAATTAAAAC
1 AAAAATTAAATAAAAAC
25773002 AAAAATTAAA-AAAAAC
1 AAAAATTAAATAAAAAC
25773018 ATAAAA
1 A-AAAA
25773024 ATGGCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATTAAATAAAAAC
Found at i:25776485 original size:29 final size:31
Alignment explanation
Indices: 25776425--25776489 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
25776415 AACAGATATC
25776425 AATCATGCAGTGAACAATATGAAATATCATT
1 AATCATGCAGTGAACAATATGAAATATCATT
25776456 AATCGATGCAGT-AACAATA-GAAA-ATCATT
1 AATC-ATGCAGTGAACAATATGAAATATCATT
25776485 AATCA
1 AATCA
25776490 GTGTAGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
28 1 0.03
29 10 0.30
30 4 0.12
31 11 0.33
32 7 0.21
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (31 bp):
AATCATGCAGTGAACAATATGAAATATCATT
Found at i:25776908 original size:27 final size:27
Alignment explanation
Indices: 25776889--25777566 Score: 770
Period size: 27 Copynumber: 25.3 Consensus size: 27
25776879 GGGTATAACA
*
25776889 GTCATTTTAACCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25776916 ATTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25776943 ATCATTCTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25776970 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25776997 GTTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25777024 GTTATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25777051 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25777078 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
25777105 GTCATTTTACCCTATAGGGGTATTTTT
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
25777132 ATCATTCTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25777159 GTTATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
25777186 GTCATTTTACCC--TGTAGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** ** *
25777211 GTTATTTTACCCGGTGGGGACATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25777238 GTCATTTTACCCTATGAGGGTATTCCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
25777265 GTCATTCTACCCTATGCAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25777292 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25777319 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25777346 GTCATTTTACCCTAT-GAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
25777372 ATCATTCTACCCTAT-AGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25777398 GTTATTTTACCCTATGGGGGTATTTCT
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25777425 ATCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25777452 ATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
25777479 ATCACTTTATCCTATAGGGGTATTCCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25777506 GTCATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25777533 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
25777560 GTCATTT
1 GTCATTT
25777567 ATTGACCTCT
Statistics
Matches: 552, Mismatches: 96, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
25 22 0.04
26 43 0.08
27 487 0.88
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:25777832 original size:20 final size:20
Alignment explanation
Indices: 25777799--25777836 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25777789 TGAGCCCACA
*
25777799 TGGCCCATTTCGGCCCAACG
1 TGGCCCATTACGGCCCAACG
*
25777819 TGGCCTATTACGGCCCAA
1 TGGCCCATTACGGCCCAA
25777837 GACCATGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.21
Consensus pattern (20 bp):
TGGCCCATTACGGCCCAACG
Found at i:25780924 original size:25 final size:25
Alignment explanation
Indices: 25780882--25780935 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
25780872 AAATGGATGC
*
25780882 GTTTGGAGGGTATATTTGGTTGTGT
1 GTTTGGAGGCTATATTTGGTTGTGT
*
25780907 GTTTGGAGGCTATGTTTGGTTGTGT
1 GTTTGGAGGCTATATTTGGTTGTGT
25780932 -TTTG
1 GTTTG
25780936 TGAGTGATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.09, C:0.02, G:0.39, T:0.50
Consensus pattern (25 bp):
GTTTGGAGGCTATATTTGGTTGTGT
Found at i:25785155 original size:30 final size:27
Alignment explanation
Indices: 25785090--25785169 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 27
25785080 ATCCATATTT
25785090 ATGGAAAGTCAAAGATATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
25785117 AT--AAAGTCAAAGATATGGGTATCAAA
1 ATGGAAAGTCAAAGATATGGGTATC-AA
25785143 TATTGGAAAGTCAAAGATATGGGTATC
1 -A-TGGAAAGTCAAAGATATGGGTATC
25785170 GCGATATTGG
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
25 21 0.44
26 2 0.04
27 3 0.06
28 1 0.02
30 21 0.44
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (27 bp):
ATGGAAAGTCAAAGATATGGGTATCAA
Found at i:25786903 original size:16 final size:16
Alignment explanation
Indices: 25786882--25786913 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25786872 GGTTCATCAA
25786882 TTCACAATACAAAAGG
1 TTCACAATACAAAAGG
*
25786898 TTCACAATACGAAAGG
1 TTCACAATACAAAAGG
25786914 AATTCTGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (16 bp):
TTCACAATACAAAAGG
Found at i:25789458 original size:25 final size:25
Alignment explanation
Indices: 25789424--25789501 Score: 93
Period size: 25 Copynumber: 2.9 Consensus size: 25
25789414 ATATTTATGG
*
25789424 AAAGTCAAAGTTATGGGTATCAAAT
1 AAAGTCAAAGATATGGGTATCAAAT
25789449 AAAGTCAAAGATATGGGTATCAAATATT
1 AAAGTCAAAGATATGGGTATC-AA-A-T
*
25789477 GGAAAGTCAAATATATGGGTATCAA
1 --AAAGTCAAAGATATGGGTATCAA
25789502 GATATTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
25 20 0.43
26 2 0.04
27 1 0.02
28 1 0.02
29 2 0.04
30 20 0.43
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAGTCAAAGATATGGGTATCAAAT
Found at i:25789485 original size:30 final size:30
Alignment explanation
Indices: 25789421--25789509 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
25789411 TCCATATTTA
*
25789421 TGGAAAGTCAAAGTTATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
25789448 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
25789476 TGGAAAGTCAAATATATGGGTATCAAGATAT
1 TGGAAAGTCAAAGATATGGGTATCAA-ATAT
25789507 TGG
1 TGG
25789510 CATAAGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
25 20 0.37
26 2 0.04
27 2 0.04
28 1 0.02
30 22 0.41
31 7 0.13
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.28
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:25789501 original size:15 final size:15
Alignment explanation
Indices: 25789453--25789506 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
25789443 TCAAATAAAG
*
25789453 TCAAAGATATGGGTA
1 TCAAATATATGGGTA
**
25789468 TCAAATAT-TGGAAA
1 TCAAATATATGGGTA
25789482 GTCAAATATATGGGTA
1 -TCAAATATATGGGTA
25789498 TCAAGATAT
1 TCAA-ATAT
25789507 TGGCATAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.13
15 19 0.61
16 8 0.26
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (15 bp):
TCAAATATATGGGTA
Found at i:25798159 original size:22 final size:23
Alignment explanation
Indices: 25798134--25798187 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
25798124 TTATAAATTC
25798134 AATTTAA-ATGATATAAT-ATAAT
1 AATTTAACAT-ATATAATAATAAT
*
25798156 AATTTCAAGCATATTTAATAATAAT
1 AATTT-AA-CATATATAATAATAAT
25798181 AATTTAA
1 AATTTAA
25798188 TTATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 5 0.19
23 2 0.07
24 8 0.30
25 12 0.44
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
AATTTAACATATATAATAATAAT
Found at i:25800066 original size:18 final size:17
Alignment explanation
Indices: 25800043--25800085 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
25800033 ATTTAGTTAT
25800043 TATTATATCTATTATTAC
1 TATTATATCT-TTATTAC
*
25800061 TATTATCATCTTTATTAT
1 TATTAT-ATCTTTATTAC
25800079 TATTATA
1 TATTATA
25800086 GTTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 18 0.78
19 4 0.17
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATATCTTTATTAC
Found at i:25800081 original size:6 final size:6
Alignment explanation
Indices: 25800028--25800121 Score: 52
Period size: 6 Copynumber: 15.3 Consensus size: 6
25800018 TTTAGCAATT
* *
25800028 TTATTA TTTAGTTA TTATTA -TATCTA TTATTA CTATTA TCATCT- TTATTA
1 TTATTA -TTA-TTA TTATTA TTAT-TA TTATTA TTATTA TTAT-TA TTATTA
* * * *
25800078 TTATTA -TAGTTA TTTTTA -TAGTTA TTTTTA TTTTTA TTTTTA TT
1 TTATTA TTA-TTA TTATTA TTA-TTA TTATTA TTATTA TTATTA TT
25800122 TACTTATGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
5 7 0.10
6 49 0.69
7 12 0.17
8 3 0.04
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (6 bp):
TTATTA
Found at i:25800090 original size:12 final size:11
Alignment explanation
Indices: 25800028--25800108 Score: 65
Period size: 12 Copynumber: 6.9 Consensus size: 11
25800018 TTTAGCAATT
25800028 TTATTATT-TA
1 TTATTATTATA
25800038 GTTATTATTATA
1 -TTATTATTATA
25800050 TCTATTATTACTA
1 T-TATTATTA-TA
* *
25800063 TTATCATCTTTA
1 TTATTAT-TATA
25800075 TTATTATTATA
1 TTATTATTATA
*
25800086 GTTATTTTTATA
1 -TTATTATTATA
*
25800098 GTTATTTTTAT
1 -TTATTATTAT
25800109 TTTTATTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
11 12 0.20
12 44 0.73
13 4 0.07
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (11 bp):
TTATTATTATA
Found at i:25800122 original size:6 final size:6
Alignment explanation
Indices: 25800087--25800122 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
25800077 ATTATTATAG
**
25800087 TTATTT TTATAG TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
25800123 ACTTATGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:25805249 original size:7 final size:7
Alignment explanation
Indices: 25805239--25805271 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
25805229 AAAAAAACAA
25805239 AAAAATG
1 AAAAATG
25805246 -AAAATG
1 AAAAATG
25805252 AAAAATG
1 AAAAATG
25805259 -AAAATG
1 AAAAATG
25805265 AAAAATG
1 AAAAATG
25805272 GAAAGGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:25805257 original size:13 final size:13
Alignment explanation
Indices: 25805239--25805271 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
25805229 AAAAAAACAA
25805239 AAAAATGAAAATG
1 AAAAATGAAAATG
25805252 AAAAATGAAAATG
1 AAAAATGAAAATG
25805265 AAAAATG
1 AAAAATG
25805272 GAAAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:25806754 original size:44 final size:44
Alignment explanation
Indices: 25806646--25807281 Score: 387
Period size: 44 Copynumber: 14.6 Consensus size: 44
25806636 TCACACCAGG
* * * * * **
25806646 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-CTAGTA-A
*
25806692 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
* * * * * **
25806736 TCCTATCTCTCTGAGATTACAGTGGAGCGGAT-TAA---AG-GG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
* *** ** * * *
25806775 TCTTATCTCTCTGA-AGTTACAATAGAATAGATCGCA-CCAG--G
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGCTAGTAA
* * * * * *
25806816 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTA-GT-A-A
*
25806862 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
* * * * * **
25806906 TCCTATCTCTCTGAGATTACAGTGGAGCGGAT-TAA---AG-GG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
* ** ** * * *
25806945 TCTTATCTCTCTGA-AGTTACAGTAGAGTGGATCGTATC-AG--G
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGCTAGTAA
* * * * *
25806986 TCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAAGAATTA-CAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG--CTAGTA-A
* *
25807032 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
* * * * * *
25807076 TCTTATCTCCCTAAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-CTAGTA-A
* * *
25807122 TCTTATCTCCCTAAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
* * *
25807166 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
* *
25807210 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
* *
25807254 TCCTATCTCCCTGA-AGTTGCAGCGGAGC
1 TCTTATCTCCCTGAGA-TTACAGCGGAGC
25807282 GGATTAAAGC
Statistics
Matches: 474, Mismatches: 89, Indels: 56
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.00
39 51 0.11
40 6 0.01
41 57 0.12
42 6 0.01
43 5 0.01
44 200 0.42
45 13 0.03
46 133 0.28
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAA
Found at i:25806762 original size:170 final size:170
Alignment explanation
Indices: 25806476--25807330 Score: 1036
Period size: 170 Copynumber: 5.0 Consensus size: 170
25806466 ATTATACACA
* *
25806476 TCTTATTTCCCTGAGATTACGGTGGAACAGACCGAAAAATTACAGATCTTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
* ** * * *
25806541 CAGTGGAGCAGATTGAATATAGTAATCCTATCTCCCTAAGATTAGAGTGGAGCGAATTAAAGGAT
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
*
25806606 CTTATCTCTTTGAAGTTACAGTAGAGTAGATCACACCAGG
131 CTTATCTCTCTGAAGTTACAGTAGAGTAGATCACACCAGG
**
25806646 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTAGATCTTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
* *
25806711 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAGGGT
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
* * *
25806776 CTTATCTCTCTGAAGTTACAATAGAATAGATCGCACCAGG
131 CTTATCTCTCTGAAGTTACAGTAGAGTAGATCACACCAGG
*
25806816 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
* *
25806881 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAGGGT
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
* ** *
25806946 CTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAGG
131 CTTATCTCTCTGAAGTTACAGTAGAGTAGATCACACCAGG
* * *
25806986 TCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
** * * * **
25807051 CAGCGGAGCAGATCAAAGATAGTAATCTTATCTCCCTAAGATTACAGTGGAGCAGACCGAAGAAT
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC-G---GATTAA-
* * ** * * ** *
25807116 TGCAGATCTTATCTCCCT-AAGATTACAGCGGAGCAGATCAAAGATAGTAA
126 AG--GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCACA-CCAG--G
* ** * ** *
25807166 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAG-A-TAGTA-ATCTTATCTCCCTGAGATT
1 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTA-CAGATCTTATCTCCCTGAGATT
* * *
25807228 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGA-AGTTGCAGCGGAGCGGATTAAAGC
65 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGATTAAAG-
*
25807292 CACAGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATC
128 ----GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
25807331 GTATCAGGCC
Statistics
Matches: 600, Mismatches: 68, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
170 426 0.71
171 1 0.00
173 1 0.00
174 8 0.01
175 1 0.00
176 31 0.05
177 31 0.05
178 67 0.11
179 2 0.00
180 32 0.05
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (170 bp):
TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
CTTATCTCTCTGAAGTTACAGTAGAGTAGATCACACCAGG
Found at i:25806840 original size:80 final size:80
Alignment explanation
Indices: 25806739--25807013 Score: 239
Period size: 80 Copynumber: 3.3 Consensus size: 80
25806729 CTAGTAATCC
* * *
25806739 TATCTCTCTGAGATTACAGTGGAGCGGATTAAAGGGTCTTATCTCTCTGAAGTTACAATAGAATA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGGTCTTATCTCTCTGAAGTTACAGTAGAGTA
*
25806804 GATCGCACCAGGTCT
66 GATCGAACCAGGTCT
* ** * *
25806819 TATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCA-GATCTTATCTCCCTG-AGATTAC
1 TATCTCCCTGAGATTACAGTGG---AG--CG--G-ATTAAAGGGTCTTATCTCTCTGAAG-TTAC
** * * * * *
25806882 AGCGGAGCAGATTGAAGCTAGTAATCC
57 AGTAGAGTAGATCGAA-CCAG--GTCT
* *
25806909 TATCTCTCTGAGATTACAGTGGAGCGGATTAAAGGGTCTTATCTCTCTGAAGTTACAGTAGAGTG
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGGTCTTATCTCTCTGAAGTTACAGTAGAGTA
* *
25806974 GATCGTATCAGGTCT
66 GATCGAACCAGGTCT
*
25806989 TATCTCCTTGAGATTACAGTGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
25807014 AGACCGAAGA
Statistics
Matches: 147, Mismatches: 34, Indels: 28
0.70 0.16 0.13
Matches are distributed among these distances:
80 45 0.31
82 6 0.04
83 30 0.20
84 2 0.01
85 4 0.03
86 2 0.01
87 29 0.20
88 7 0.05
90 22 0.15
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (80 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGGTCTTATCTCTCTGAAGTTACAGTAGAGTA
GATCGAACCAGGTCT
Found at i:25807301 original size:88 final size:86
Alignment explanation
Indices: 25806517--25807319 Score: 504
Period size: 90 Copynumber: 9.3 Consensus size: 86
25806507 CCGAAAAATT
* * ** * *
25806517 ACAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATAGTAATCCTATCTCCCTAAGA
1 ACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCTGAGA
*
25806582 TTAGAGTGGAGC-GAATTAAAG
66 TTACAGTGGAGCAG-ATTAAAG
** ** * * * *
25806603 ---GATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATC-ACA-CCAG--GTCTTATTTCCCTGA
1 ACAGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGA-AGCTAGTAATCTTATCTCCCTGA
* ***
25806660 GATTACAGTGGAACAGACCGAAG
64 GATTACAGTGGAGCAGATTAAAG
* * * *
25806683 AATTTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCT
1 -A---CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCT
*
25806748 GAGATTACAGTGGAGCGGATTAAAG
62 GAGATTACAGTGGAGCAGATTAAAG
* * *** ** * * * *
25806773 ---GGTCTTATCTCTCTGA-AGTTACAATAGAATAGATCGCA-CCAG--GTCTTATTTCCCTGAG
1 ACAGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCTGAG
* ***
25806831 ATTACAGTGGAACAGACCGAAG
65 ATTACAGTGGAGCAGATTAAAG
* * *
25806853 AATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCT
1 -A---CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCT
*
25806918 GAGATTACAGTGGAGCGGATTAAAG
62 GAGATTACAGTGGAGCAGATTAAAG
* * ** ** * * * *
25806943 ---GGTCTTATCTCTCTGA-AGTTACAGTAGAGTGGATCGTATC-AG--GTCTTATCTCCTTGAG
1 ACAGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCTGAG
** *
25807001 ATTACAGTGGAGCAGACCGAAGAATT
65 ATTACAGTGGAGCAGA--TTA-AA-G
* * *
25807027 ACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCTTATCTCCCTAAGA
1 ACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCTGAGA
***
25807092 TTACAGTGGAGCAGACCGAAG
66 TTACAGTGGAGCAGATTAAAG
* * *
25807113 AATTGCAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATCAAAGATAGTAATCTTATCTCCCT
1 -A---CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCT
** *
25807178 GAGATTACAGCAGAGCAGATTGAAG
62 GAGATTACAGTGGAGCAGATTAAAG
* * * *
25807203 ATAGTAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGA
1 ACAG--ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCTGA
* * *
25807268 -AGTTGCAGCGGAGCGGATTAAAG
64 GA-TTACAGTGGAGCAGATTAAAG
*
25807291 CCACAGATCTTATCTCTCTGA-AGTTACAG
1 --ACAGATCTTATCTCCCTGAGA-TTACAG
25807320 TAGAGTGGAT
Statistics
Matches: 545, Mismatches: 123, Indels: 96
0.71 0.16 0.13
Matches are distributed among these distances:
80 83 0.15
81 1 0.00
82 12 0.02
83 87 0.16
86 2 0.00
87 88 0.16
88 102 0.19
89 1 0.00
90 169 0.31
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (86 bp):
ACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCTTATCTCCCTGAGA
TTACAGTGGAGCAGATTAAAG
Found at i:25807305 original size:44 final size:43
Alignment explanation
Indices: 25806519--25807319 Score: 311
Period size: 44 Copynumber: 18.6 Consensus size: 43
25806509 GAAAAATTAC
* * *
25806519 AGATCTTATCTCCCTG-AGATTACAGTGGAGCAGATTGAATAT
1 AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * *
25806561 AGTAATCCTATCTCCCT-AAGATTAGAGTGGAGC-GAATTAAAG--
1 AG--ATCTTATCTCCCTGAAGATTACAGCGGAGCAG-ATTAAAGAT
** ** * * * **
25806603 -GATCTTATCTCTTTGAAG-TTACAGTAGAGTAGATCACA-CC
1 AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * * * ***
25806643 AGGTCTTATTTCCCTG-AGATTACAGTGGAACAGACCGAAGAATTTT
1 AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAG-A---T
* *
25806689 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCT
1 AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * * *
25806731 AGTAATCCTATCTCTCTG-AGATTACAGTGGAGCGGATTAAAG--
1 AG--ATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * *** ** *** **
25806773 -GGTCTTATCTCTCTGAAG-TTACAATAGAATAGATCGCA-CC
1 AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * * * ***
25806813 AGGTCTTATTTCCCTG-AGATTACAGTGGAACAGACCGAAGAATTT
1 AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAG-A--T
* *
25806858 CAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCT
1 -AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * * *
25806901 AGTAATCCTATCTCTCTG-AGATTACAGTGGAGCGGATTAAAG--
1 AG--ATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * ** ** *
25806943 -GGTCTTATCTCTCTGAAG-TTACAGTAGAGTGGA-T--CGTAT
1 AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAG-AT
* * * ***
25806982 CAGGTCTTATCTCCTTG-AGATTACAGTGGAGCAGACCGAAGAATT
1 -AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAG-A-T
*
25807027 ACAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAGAT
1 --AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* ***
25807071 AGTAATCTTATCTCCCT-AAGATTACAGTGGAGCAGACCGAAGAATT
1 AG--ATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAG-A-T
*
25807117 GCAGATCTTATCTCCCT-AAGATTACAGCGGAGCAGATCAAAGAT
1 --AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* *
25807161 AGTAATCTTATCTCCCTG-AGATTACAGCAGAGCAGATTGAAGAT
1 AG--ATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * *
25807205 AGTAATCTTATCTCCCTG-AGATTACAGCGGAGTAGATTGAAGCT
1 AG--ATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
* * * *
25807249 AGTAATCCTATCTCCCTGAAG-TTGCAGCGGAGCGGATTAAAGCCAC
1 AG--ATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAG--AT
*
25807295 AGATCTTATCTCTCTGAAG-TTACAG
1 AGATCTTATCTCCCTGAAGATTACAG
25807320 TAGAGTGGAT
Statistics
Matches: 598, Mismatches: 107, Indels: 106
0.74 0.13 0.13
Matches are distributed among these distances:
36 1 0.00
38 1 0.00
39 72 0.12
40 14 0.02
41 81 0.14
42 11 0.02
43 2 0.00
44 266 0.44
45 6 0.01
46 142 0.24
48 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAAGATTACAGCGGAGCAGATTAAAGAT
Found at i:25808899 original size:3 final size:3
Alignment explanation
Indices: 25808882--25808972 Score: 55
Period size: 3 Copynumber: 29.7 Consensus size: 3
25808872 TTTAGCAATT
* *
25808882 TTA TTA TTTA GTTA TTA TTA TTA -TA TCTA TTA TTA CTA TTA TCA -TA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
25808928 TTTA CTA TTA TTA -TA GTTA TTA TTA -TA GTTA TTT TTA TTT TTA TT
1 -TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
25808973 TACTTATGTA
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
2 7 0.10
3 46 0.68
4 15 0.22
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:25808914 original size:12 final size:11
Alignment explanation
Indices: 25808894--25808965 Score: 65
Period size: 12 Copynumber: 6.1 Consensus size: 11
25808884 ATTATTTAGT
25808894 TATTATTATTA
1 TATTATTATTA
25808905 TATCTATTATTA
1 TAT-TATTATTA
25808917 CTATTATCATATT-
1 -TATTAT--TATTA
*
25808930 TACTATTATTA
1 TATTATTATTA
25808941 TAGTTATTATTA
1 TA-TTATTATTA
*
25808953 TAGTTATTTTTA
1 TA-TTATTATTA
25808965 T
1 T
25808966 TTTTATTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
10 4 0.08
11 5 0.10
12 36 0.69
13 3 0.06
14 4 0.08
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (11 bp):
TATTATTATTA
Found at i:25809312 original size:16 final size:16
Alignment explanation
Indices: 25809275--25809312 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
25809265 TTTGAATGAA
25809275 TGTTTTTAATTTTTAT
1 TGTTTTTAATTTTTAT
25809291 TCGTTTTT-ATATTTTAT
1 T-GTTTTTAAT-TTTTAT
25809308 TGTTT
1 TGTTT
25809313 GTATGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.74
Consensus pattern (16 bp):
TGTTTTTAATTTTTAT
Found at i:25810365 original size:3 final size:3
Alignment explanation
Indices: 25810357--25810381 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25810347 ATAACAAATG
25810357 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
25810382 ACCATCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25812218 original size:27 final size:26
Alignment explanation
Indices: 25812161--25812230 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 26
25812151 TTGTTGCACC
*
25812161 AGAATGAGAGGCTGAGATTGGAGTTAA
1 AGAATGAGAAGCTGAGATTGGAG-TAA
25812188 AGAATGAGAAGCTGAGATT-G-G---
1 AGAATGAGAAGCTGAGATTGGAGTAA
25812209 AGAATGAGAAGCTGAGATTGGA
1 AGAATGAGAAGCTGAGATTGGA
25812231 ATTAGAGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 19 0.47
22 1 0.03
25 1 0.03
26 1 0.03
27 18 0.45
ACGTcount: A:0.39, C:0.04, G:0.37, T:0.20
Consensus pattern (26 bp):
AGAATGAGAAGCTGAGATTGGAGTAA
Found at i:25812238 original size:27 final size:26
Alignment explanation
Indices: 25812161--25812239 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 26
25812151 TTGTTGCACC
* *
25812161 AGAATGAGAGGCTGAGATTGGAGTTAA
1 AGAATGAGAAGCTGAGATTGGA-TTAG
25812188 AGAATGAGAAGCTGAGATT-G----G
1 AGAATGAGAAGCTGAGATTGGATTAG
25812209 AGAATGAGAAGCTGAGATTGGAATTAG
1 AGAATGAGAAGCTGAGATTGG-ATTAG
25812236 AGAA
1 AGAA
25812240 GCTCAAAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
21 19 0.43
22 1 0.02
26 1 0.02
27 23 0.52
ACGTcount: A:0.41, C:0.04, G:0.35, T:0.20
Consensus pattern (26 bp):
AGAATGAGAAGCTGAGATTGGATTAG
Found at i:25812714 original size:12 final size:12
Alignment explanation
Indices: 25812697--25812721 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25812687 CCACTCAACA
25812697 ACCTATCTCATT
1 ACCTATCTCATT
25812709 ACCTATCTCATT
1 ACCTATCTCATT
25812721 A
1 A
25812722 GGTACGTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (12 bp):
ACCTATCTCATT
Found at i:25814652 original size:16 final size:16
Alignment explanation
Indices: 25814631--25814698 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
25814621 TTTGGTTCGT
25814631 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25814647 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
25814663 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
25814679 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25814695 TGTA
1 TGTA
25814699 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25814953 original size:16 final size:16
Alignment explanation
Indices: 25814916--25814957 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25814906 TTAATCATAT
*
25814916 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25814932 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25814947 TTAAAATATAT
1 TTAAAATATAT
25814958 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25814964 original size:14 final size:15
Alignment explanation
Indices: 25814925--25814966 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25814915 TTTAAACATA
*
25814925 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25814940 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25814954 A-TATAATTTAATA
1 ATTATAATTAAATA
25814967 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25815016 original size:61 final size:61
Alignment explanation
Indices: 25814951--25815138 Score: 206
Period size: 61 Copynumber: 3.1 Consensus size: 61
25814941 TTATAATTAA
* *
25814951 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCAT
* * * * * * * * * *
25815012 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATAAATTTACTAAAATCAT
25815071 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCAT
25815132 AATATAT
1 AATATAT
25815139 GATACTATAA
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 1 0.01
59 31 0.32
60 24 0.25
61 40 0.41
62 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCAT
Found at i:25815064 original size:120 final size:121
Alignment explanation
Indices: 25814914--25815211 Score: 494
Period size: 120 Copynumber: 2.5 Consensus size: 121
25814904 ATTTAATCAT
*
25814914 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
25814979 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 ATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAAGA-AA
25815036 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
25815099 ATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAAGAAA
66 ATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAAGAAA
* * * *
25815155 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
25815212 TAAAATAATT
Statistics
Matches: 167, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 159 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAAGAAA
Found at i:25815084 original size:14 final size:15
Alignment explanation
Indices: 25815035--25815086 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25815025 ATAAAATATA
25815035 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25815050 TATTAAATATATTAT
1 AATTAAATATATTAT
25815065 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25815078 AATTTAATA
1 AATTAAATA
25815087 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25815088 original size:59 final size:58
Alignment explanation
Indices: 25814919--25815215 Score: 185
Period size: 59 Copynumber: 5.0 Consensus size: 58
25814909 ATCATATTTA
* * *
25814919 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * *
25814978 AATCA-ATATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATAAA-T
* * *
25815039 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
25815098 AATCA-ATATTCTTATATAAATTTACTAAAATCATAATATATGATACT-ATAAAAGA-AAATTT
1 AA-CATA-ATTATTAT-TAAATATATTATAATTAAAATATATGAT-TTAATAAAATATAAA--T
* * * *
25815159 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
25815216 ATAATTATAA
Statistics
Matches: 175, Mismatches: 43, Indels: 39
0.68 0.17 0.15
Matches are distributed among these distances:
58 4 0.02
59 61 0.35
60 45 0.26
61 59 0.34
62 6 0.03
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:25830550 original size:41 final size:41
Alignment explanation
Indices: 25830491--25830642 Score: 180
Period size: 41 Copynumber: 3.7 Consensus size: 41
25830481 TTTTGTAAGT
*
25830491 TCAGGCTTTATGCTTAGCAGGCTTTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
25830532 TCAGGCTTTATGCCTAGCAGGC-TCAGTGTCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTA-TGCCGGTGAATTATA
* * * * * * *
25830573 TCAGACCTTATGTCTAGCAGGTTTTGTGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
25830614 TCGGGCTTTGTGCCTAGCAGGCTTTATGC
1 TCAGGCTTTATGCCTAGCAGGCTTTATGC
25830643 ACTACACCAA
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
40 2 0.02
41 87 0.97
42 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:25830857 original size:41 final size:41
Alignment explanation
Indices: 25830812--25831372 Score: 735
Period size: 41 Copynumber: 13.7 Consensus size: 41
25830802 GAACTTTCGG
* *
25830812 GGGCTTTAGCGGCATTTTTGAGAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * *
25830853 GGGCTTTAGCCGCGTTTTTGAGAAAGCGCTGCTAATGATCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
25830894 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* *
25830935 GGGCTTTAACGGCGTTTTTGAGAAAGCGCTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * **
25830976 AGGCTTTAGCGGCATTTTTGAGAAAGCATCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * * *
25831017 TGGCTTTAGCGGCATTTTTTATAAAGCGCCGCTAATGCTAA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * * *
25831058 TGGCATTAGCGGCGTTTTTGAGGAAGCGTCGCTAATGCTCC
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * *
25831099 GGGCTTTAACGGTGTTTTTGAGGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
25831140 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTAA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * *
25831181 AGGCTTTAGCGGTGTTTTTGAGAAAGCACCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * * ** *
25831222 TGGCTTTAGCGGCATTTTTTATAAAGCATCGCTAATGCTAA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * **
25831263 TGGCTTTAGCGGCGTTTTTGAGGAAGCGCATCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* **
25831304 GGGCTTTAGCGGTGTTTTTGAGGGAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
25831345 AGGCTTTAGCGGCGTTTTTGAGAAAGCG
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCG
25831373 TCGCGAATTC
Statistics
Matches: 451, Mismatches: 69, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 451 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
Found at i:25831708 original size:7 final size:7
Alignment explanation
Indices: 25831666--25831719 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
25831656 GTGTTACCAT
*
25831666 TTTAAGG
1 TTTATGG
*
25831673 TTTATGA
1 TTTATGG
*
25831680 ATTATGGG
1 TTTAT-GG
*
25831688 TTTAGGG
1 TTTATGG
*
25831695 GTTATGG
1 TTTATGG
25831702 TTTATGG
1 TTTATGG
25831709 TTTATGG
1 TTTATGG
25831716 TTTA
1 TTTA
25831720 AAGGCTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 33 0.89
8 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:25831771 original size:14 final size:14
Alignment explanation
Indices: 25831608--25831773 Score: 74
Period size: 14 Copynumber: 11.9 Consensus size: 14
25831598 TATCACTATA
*
25831608 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
25831622 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* * *
25831636 GATTAGAGTTTAAG
1 GTTTAGGGTTTATG
*
25831650 GTTTAGGTGTTACCAT-
1 GTTTAGG-GTT--TATG
*
25831666 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
** *
25831679 AATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* *
25831694 GGTTATGGTTTATG
1 GTTTAGGGTTTATG
* *
25831708 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* * *
25831723 G-CTGGGGTTTAAG
1 GTTTAGGGTTTATG
25831736 GTTTA--G-TTATG
1 GTTTAGGGTTTATG
*
25831747 TGTTAAGGGTTTATG
1 -GTTTAGGGTTTATG
25831762 GTTTAGGGTTTA
1 GTTTAGGGTTTA
25831774 GATTAACTAG
Statistics
Matches: 111, Mismatches: 29, Indels: 24
0.68 0.18 0.15
Matches are distributed among these distances:
11 4 0.04
12 7 0.06
13 4 0.04
14 69 0.62
15 26 0.23
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:25832047 original size:14 final size:15
Alignment explanation
Indices: 25832021--25832058 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
25832011 AATAATTATA
25832021 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
25832036 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
25832050 TATGG-TTTA
1 TATGGATTTA
25832059 AGGGTTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:25832102 original size:22 final size:22
Alignment explanation
Indices: 25832059--25832118 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
25832049 TTATGGTTTA
* * *
25832059 AGGGTTGGGATTTAAGGTTTAG
1 AGGGTTAGGAGTTAAGGGTTAG
*
25832081 AGGGTTAGGAGTTAGGGGTTAG
1 AGGGTTAGGAGTTAAGGGTTAG
*
25832103 -GGGTTAAGAGTTAAGG
1 AGGGTTAGGAGTTAAGG
25832119 ATTTAGGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.25, C:0.00, G:0.45, T:0.30
Consensus pattern (22 bp):
AGGGTTAGGAGTTAAGGGTTAG
Found at i:25832131 original size:22 final size:22
Alignment explanation
Indices: 25832070--25832143 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
25832060 GGGTTGGGAT
*
25832070 TTAAGG-TTTAGAGGGTTAGGAG
1 TTAAGGATTTAG-GGGTTAAGAG
**
25832092 TT-AGGGGTTAGGGGTTAAGAG
1 TTAAGGATTTAGGGGTTAAGAG
* *
25832113 TTAAGGATTTAGGGTTTAAGAT
1 TTAAGGATTTAGGGGTTAAGAG
25832135 TTAAGGATT
1 TTAAGGATT
25832144 CAAGGGTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
21 14 0.32
22 30 0.68
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.35
Consensus pattern (22 bp):
TTAAGGATTTAGGGGTTAAGAG
Found at i:25832541 original size:14 final size:13
Alignment explanation
Indices: 25832516--25832557 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
25832506 AGATAGTACT
25832516 AATTAGTTTTTTA
1 AATTAGTTTTTTA
25832529 AATTAGCTTTTTTA
1 AATTAG-TTTTTTA
* *
25832543 ATTTA-TATTTTA
1 AATTAGTTTTTTA
25832555 AAT
1 AAT
25832558 ATGTTCTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 8 0.32
13 6 0.24
14 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (13 bp):
AATTAGTTTTTTA
Found at i:25832637 original size:14 final size:14
Alignment explanation
Indices: 25832618--25832662 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
25832608 TTAATTATGA
25832618 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
25832632 TTATAGTTTATGGT
1 TTATAGTTTAGGGT
* * *
25832646 ATATGGTGTAGGGT
1 TTATAGTTTAGGGT
25832660 TTA
1 TTA
25832663 ATGTTTAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:25832704 original size:15 final size:14
Alignment explanation
Indices: 25832686--25832722 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
25832676 ACTATTTTAA
25832686 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
25832700 GGGTTTAAGGATTAT
1 -GGTTTATGGATTAT
25832715 GGTTTATG
1 GGTTTATG
25832723 ATTTATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:25832706 original size:22 final size:22
Alignment explanation
Indices: 25832681--25832722 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25832671 GAGTTACTAT
*
25832681 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTATGGG
*
25832703 TTTAAGGATTATGGTTTATG
1 TTTAAGGATTATGGATTATG
25832723 ATTTATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
TTTAAGGATTATGGATTATGGG
Found at i:25832720 original size:14 final size:14
Alignment explanation
Indices: 25832686--25832768 Score: 53
Period size: 14 Copynumber: 5.9 Consensus size: 14
25832676 ACTATTTTAA
*
25832686 GGTTTATGGATTAT
1 GGTTTAAGGATTAT
25832700 GGGTTTAAGGATTAT
1 -GGTTTAAGGATTAT
*
25832715 GGTTT-ATGATTTAT
1 GGTTTAAGGA-TTAT
* * *
25832729 TGTTTAAGGGTT-G
1 GGTTTAAGGATTAT
* *
25832742 GGATTTAAGGGTTAA
1 GG-TTTAAGGATTAT
*
25832757 GGGTTAAGGATT
1 GGTTTAAGGATT
25832769 TAGGGGTTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
13 4 0.07
14 33 0.61
15 17 0.31
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
GGTTTAAGGATTAT
Found at i:25832770 original size:22 final size:21
Alignment explanation
Indices: 25832732--25832777 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
25832722 GATTTATTGT
*
25832732 TTAAGGGTTGGGATTTAAGGG
1 TTAAGGGTTAGGATTTAAGGG
*
25832753 TTAAGGGTTAAGGATTTAGGGG
1 TTAAGGGTT-AGGATTTAAGGG
25832775 TTA
1 TTA
25832778 TGTTTTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.39, T:0.35
Consensus pattern (21 bp):
TTAAGGGTTAGGATTTAAGGG
Found at i:25837047 original size:43 final size:43
Alignment explanation
Indices: 25836994--25837244 Score: 186
Period size: 43 Copynumber: 6.1 Consensus size: 43
25836984 TTTTTAGTGC
* * * * *
25836994 CGTTTTTGGGAGAAGCGTCGCTAAAGGTCTTGATCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
* * * * *
25837037 CGTTTGTGGGAAAAGCGCCGTTAAAGATCAAGACCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
* ** * *
25837080 CGCTTTTTTCGAAAA--GCCGCTAAAGGTCCTGATTTATAGCGG
1 CG-TTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
*** * **
25837122 CGTTTGTAAAAAAAGCGTC-CT--A-G-C-----CTATAATGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
* *
25837155 CGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTGACCTATAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
*
25837197 CGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
25837240 CGTTT
1 CGTTT
25837245 ATTTTTAAAA
Statistics
Matches: 160, Mismatches: 34, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
32 8 0.05
33 15 0.09
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 8 0.05
42 38 0.24
43 76 0.47
44 9 0.06
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
Found at i:25838299 original size:71 final size:71
Alignment explanation
Indices: 25838180--25838529 Score: 428
Period size: 71 Copynumber: 5.0 Consensus size: 71
25838170 TGATGTATTG
* * * * ** * *
25838180 TGTATATGCTGCCCATTTG-T-TATATATATACTGTTCAATTTTGGTGTAAAAATATTGCTCAAT
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
25838243 TTGGTA
66 TTGGTA
* * *
25838249 TGTATATGCTGCCTAGTTGTTGTATATCTATGCTGTTAAATTTTGGTGT-AAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
25838313 TTGGTA
66 TTGGTA
* **
25838319 TATATATGCTAACTATTTGCTG--TATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
*
25838382 GTGGTA
66 TTGGTA
* *
25838388 TATATATGCTGCCTATTTGCTGTATATATATGCTGTTAAGTTTTGGTGTAAAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
25838453 TTGGTA
66 TTGGTA
* * * * *
25838459 TGTATATGCTGCCCATTTGTTGTATATA-A-GCTGTCCAAATTTTAGTGTATAAA-TGCTGTTTA
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGT-TAAATTTTGGTGTA-AAAGTGCTGTTAA
25838521 ATTTGGTA
64 ATTTGGTA
25838529 T
1 T
25838530 ATAATTGCTG
Statistics
Matches: 246, Mismatches: 28, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
68 24 0.10
69 62 0.25
70 63 0.26
71 97 0.39
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (71 bp):
TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
TTGGTA
Done.